A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

A3 | A3: Accurate, Adaptable, and Accessible Error Metrics for Predictive Models |

abc | Tools for Approximate Bayesian Computation (ABC) |

abcdeFBA | ABCDE_FBA: A-Biologist-Can-Do-Everything of Flux Balance Analysis with this package |

ABCExtremes | ABC Extremes |

ABCoptim | Implementation of Artificial Bee Colony (ABC) Optimization |

ABCp2 | Approximate Bayesian Computational model for estimating P2 |

abctools | Tools for ABC analyses |

abd | The Analysis of Biological Data |

abf2 | Load Axon ABF2 files (currently only in gap-free recording mode) |

abind | Combine multi-dimensional arrays |

abn | Data Modelling with Additive Bayesian Networks |

abundant | Abundant regression and high-dimensional principal fitted components |

accelerometry | Functions for processing minute-to-minute accelerometer data |

AcceptanceSampling | Creation and evaluation of Acceptance Sampling Plans |

ACCLMA | ACC & LMA Graph Plotting |

accrual | Bayesian Accrual Prediction |

accrued | Visualization tools for partially accruing data |

ACD | Categorical data analysis with complete or missing responses |

acepack | ace() and avas() for selecting regression transformations |

acm4r | Align-and-Count Method comparisons of RFLP data |

ACNE | Affymetrix SNP probe-summarization using non-negative matrix factorization |

acopula | Modelling dependence with multivariate Archimax (or any user-defined continuous) copulas |

acp | Autoregressive Conditional Poisson |

aCRM | Convenience functions for analytical Customer Relationship Management |

acs | Download, manipulate, and present data from the US Census American Community Survey |

acss | Algorithmic Complexity for Short Strings |

acss.data | Data Only: Algorithmic Complexity of Short Strings (Computed via Coding Theorem Method) |

ACTCD | Asymptotic Classification Theory for Cognitive Diagnosis |

Actigraphy | Actigraphy Data Analysis |

activity | Animal Activity Statistics |

actuar | Actuarial functions |

ActuDistns | Functions for actuarial scientists |

ada | ada: an R package for stochastic boosting |

adabag | Applies multiclass AdaBoost.M1, AdaBoost-SAMME and Bagging |

adagio | Discrete and Global Optimization Routines |

AdapEnetClass | A class of adaptive elastic net methods for censored data |

adaptDA | Adaptive Mixture Discriminant Analysis |

AdaptFit | Adaptive Semiparametic Regression |

AdaptFitOS | Adaptive Semiparametric Regression with Simultaneous Confidence Bands |

AdaptiveSparsity | Adaptive Sparsity Models |

adaptivetau | Tau-leaping stochastic simulation |

adaptMCMC | Implementation of a generic adaptive Monte Carlo Markov Chain sampler |

adaptsmoFMRI | Adaptive Smoothing of FMRI Data |

adaptTest | Adaptive two-stage tests |

additivityTests | Additivity tests in the two way ANOVA with single sub-class numbers |

ADDT | A Package for Analysis of Accelerated Destructive Degradation Test Data |

ade4 | Analysis of Ecological Data : Exploratory and Euclidean methods in Environmental sciences |

ade4TkGUI | ade4 Tcl/Tk Graphical User Interface |

adegenet | adegenet: an R package for the exploratory analysis of genetic and genomic data |

adehabitat | Analysis of habitat selection by animals |

adehabitatHR | Home range Estimation |

adehabitatHS | Analysis of habitat selection by animals |

adehabitatLT | Analysis of animal movements |

adehabitatMA | Tools to Deal with Raster Maps |

adephylo | adephylo: exploratory analyses for the phylogenetic comparative method |

AdequacyModel | Adequacy of probabilistic models and generation of pseudo-random numbers |

ADGofTest | Anderson-Darling GoF test |

adhoc | calculate ad hoc distance thresholds for DNA barcoding identification |

adimpro | Adaptive Smoothing of Digital Images |

adlift | An adaptive lifting scheme algorithm |

ADM3 | An Interpretation of the ADM method - automated detection algorithm |

AdMit | Adaptive Mixture of Student-t distributions |

ads | Spatial point patterns analysis |

aemo | Download and process AEMO price and demand data |

AER | Applied Econometrics with R |

afex | Analysis of Factorial Experiments |

AFLPsim | Hybrid simulation and genome scan for dominant markers |

aftgee | Accelerated Failure Time Model with Generalized Estimating Equations |

AGD | Analysis of Growth Data |

agop | Aggregation Operators and Preordered Sets |

agRee | Various Methods for Measuring Agreement |

Agreement | Statistical Tools for Measuring Agreement |

agricolae | Statistical Procedures for Agricultural Research |

agridat | Agricultural datasets |

agrmt | Calculate agreement |

AGSDest | Estimation in adaptive group sequential trials |

agsemisc | Miscellaneous plotting and utility functions |

ahaz | Regularization for semiparametric additive hazards regression |

AICcmodavg | Model selection and multimodel inference based on (Q)AIC(c) |

AID | An R Package to Estimate Box-Cox Power Transformation Parameter |

aidar | Tools for reading AIDA (http://aida.freehep.org/) files into R |

AIM | AIM: adaptive index model |

akima | Interpolation of irregularly spaced data |

akmeans | Adaptive Kmeans algorithm based on threshold |

alabama | Constrained nonlinear optimization |

ALDqr | Quantile Regression Using Asymmetric Laplace Distribution |

aLFQ | An R-package for estimating absolute protein quantities from label-free LC-MS/MS proteomics data |

AlgDesign | Algorithmic Experimental Design |

ALKr | Generate Age-Length Keys for fish populations |

allan | Automated Large Linear Analysis Node |

allanvar | Allan Variance Analysis |

alleHap | Allele simulation and Haplotype reconstruction from pedigree databases |

allelematch | Identifying unique multilocus genotypes where genotyping error and missing data may be present |

AlleleRetain | Allele Retention, Inbreeding, and Demography |

allelic | A fast, unbiased and exact allelic exact test |

AllPossibleSpellings | Computes all of a word's possible spellings |

alm | R wrapper to the almetrics API platform developed by PLoS |

alphahull | Generalization of the convex hull of a sample of points in the plane |

alphashape3d | Implementation of the 3D alpha-shape for the reconstruction of 3D sets from a point cloud |

alr3 | Data to accompany Applied Linear Regression 3rd edition |

alr4 | Data to accompany Applied Linear Regression 4rd edition |

ALS | multivariate curve resolution alternating least squares (MCR-ALS) |

ALSCPC | Accelerated line search algorithm for simultaneous orthogonal transformation of several positive definite symmetric matrices to nearly diagonal form |

amap | Another Multidimensional Analysis Package |

AMAP.Seq | Compare Gene Expressions from 2-Treatment RNA-Seq Experiments |

amei | Adaptive Management of Epidemiological Interventions |

Amelia | Amelia II: A Program for Missing Data |

amen | Additive and multiplicative effects modeling of networks and relational data |

AmericanCallOpt | This package includes pricing function for selected American call options with underlying assets that generate payouts |

AMGET | Post-processing tool for ADAPT 5 |

aml | Adaptive Mixed LASSO |

AMOEBA | A Multidirectional Optimum Ecotope-Based Algorithm |

AMORE | A MORE flexible neural network package |

AmpliconDuo | Statistical Analysis Of Amplicon Data Of The Same Sample To Identify Artefacts |

anacor | Simple and Canonical Correspondence Analysis |

analogue | Analogue and weighted averaging methods for palaeoecology |

AnalyzeFMRI | Functions for analysis of fMRI datasets stored in the ANALYZE or NIFTI format |

anametrix | Bidirectional connector to Anametrix API |

anapuce | Tools for microarray data analysis |

anchors | Statistical analysis of surveys with anchoring vignettes |

AnDE | An extended Bayesian Learning Technique developed by Dr. Geoff Webb |

andrews | Andrews curves |

anesrake | ANES Raking Implementation |

animalTrack | Animal track reconstruction for high frequency 2-dimensional (2D) or 3-dimensional (3D) movement data |

animation | A gallery of animations in statistics and utilities to create animations |

AnnotLists | AnnotLists: A tool to annotate multiple lists from a specific annotation file |

AnthropMMD | A GUI for Mean Measures of Divergence |

Anthropometry | Statistical methods for anthropometric data oriented towards the ergonomic design of products |

antitrust | Antitrust Library |

AntWeb | programmatic interface to the AntWeb |

aod | Analysis of Overdispersed Data |

aods3 | Analysis of Overdispersed Data using S3 methods |

AOfamilies | Aranda-Ordaz (AO) transformation families |

aoristic | aoristic analysis with spatial output (kml) |

apc | Age-period-cohort analysis |

apcluster | Affinity Propagation Clustering |

ape | Analyses of Phylogenetics and Evolution |

aplpack | Another Plot PACKage: stem.leaf, bagplot, faces, spin3R, plotsummary, plothulls, and some slider functions |

apmsWAPP | Pre- and Postprocessing for AP-MS data analysis based on spectral counts |

appell | Compute Appell's F1 hypergeometric function |

apple | Approximate Path for Penalized Likelihood Estimators |

AppliedPredictiveModeling | Functions and Data Sets for 'Applied Predictive Modeling' |

approximator | Bayesian prediction of complex computer codes |

aprof | Amdahl's profiler, directed optimization made easy |

APSIMBatch | Analysis the output of Apsim software |

apsimr | Edit, run and evaluate APSIM simulations from R easily |

apsrtable | apsrtable model-output formatter for social science |

apt | Asymmetric Price Transmission (apt) |

apTreeshape | Analyses of Phylogenetic Treeshape |

aqfig | Functions to help display air quality model output and monitoring data |

aqp | Algorithms for Quantitative Pedology |

aqr | Interface methods to use with an ActiveQuant Master Server |

AquaEnv | AquaEnv - an integrated development toolbox for aquatic chemical model generation |

AR1seg | Segmentation of an autoregressive Gaussian process of order 1 |

archdata | Example Datasets from Archaeological Research |

archetypes | Archetypal Analysis |

archivist | Tools for storing, restoring and searching for R objects |

ArDec | Time series autoregressive-based decomposition |

arf3DS4 | Activated Region Fitting, fMRI data analysis (3D) |

arfima | Fractional ARIMA Time Series Modeling |

argosfilter | Argos locations filter |

argparse | Command line optional and positional argument parser |

argparser | Command-line argument parser |

arm | Data Analysis Using Regression and Multilevel/Hierarchical Models |

arnie | "Arnie" box office records 1982-2014 |

aroma.affymetrix | Analysis of large Affymetrix microarray data sets |

aroma.apd | A probe-level data file format used by aroma.affymetrix [DEPRECATED] |

aroma.cn | Copy-number analysis of large microarray data sets |

aroma.core | Core methods and classes used by aroma.* packages part of The Aroma Framework |

ARPobservation | Tools for simulating different methods of observing behavior based on alternating renewal processes |

aRpsDCA | Arps Decline Curve Analysis in R |

ArrayBin | Binarization of numeric data arrays |

arrayhelpers | Convenience functions for arrays |

ars | Adaptive Rejection Sampling |

ARTP | Gene and Pathway p-values computed using the Adaptive Rank Truncated Product |

arules | Mining Association Rules and Frequent Itemsets |

arulesNBMiner | Mining NB-Frequent Itemsets and NB-Precise Rules |

arulesSequences | Mining frequent sequences |

arulesViz | Visualizing Association Rules and Frequent Itemsets |

aRxiv | Interface to the arXiv API |

asbio | A collection of statistical tools for biologists |

ascii | Export R objects to several markup languages |

ascrda | Augmented SCRDA |

asd | Simulations for adaptive seamless designs |

ash | David Scott's ASH routines |

ASMap | Linkage map construction using the MSTmap algorithm |

aspace | A collection of functions for estimating centrographic statistics and computational geometries for spatial point patterns |

aspect | Aspects of Multivariables |

assertive | Readable check functions to ensure code integrity |

assertthat | Easy pre and post assertions |

AssetPricing | Optimal pricing of assets with fixed expiry date |

AssotesteR | Statistical Tests for Genetic Association Studies |

aster | Aster Models |

aster2 | Aster Models |

astro | Astronomy Functions, Tools and Routines |

astrochron | An R Package for Astrochronology |

astrodatR | Astronomical Data |

astroFns | Astronomy: time and position functions, misc. utilities |

astrolibR | Astronomy Users Library |

astsa | Applied Statistical Time Series Analysis |

asympTest | Asymptotic statistic |

asypow | Calculate Power Utilizing Asymptotic Likelihood Ratio Methods |

AtelieR | A GTK GUI for teaching basic concepts in statistical inference, and doing elementary bayesian tests |

atmcmc | Automatically Tuned Markov Chain Monte Carlo |

ATmet | Advanced Tools for Metrology |

AtmRay | Acoustic Traveltime Calculations for 1-D Atmospheric Models |

AUC | Threshold independent performance measures for probabilistic classifiers |

AUCRF | Variable Selection with Random Forest and the Area Under the Curve |

audio | Audio Interface for R |

audiolyzR | audiolyzR: Give your data a listen |

audit | Bounds for Accounting Populations |

audited | Automatic Tracing and Display of Changes to Row Count |

autoencoder | An implementation of sparse autoencoder for automatic learning of representative features from unlabeled data |

automap | Automatic interpolation package |

autopls | pls regression with backward selection of predictors |

AutoSEARCH | General-to-Specific (GETS) Model Selection |

avgrankoverlap | Average Rank Overlap |

aws | Adaptive Weights Smoothing |

awsMethods | Class and Methods definitions for packages aws, adimpro, fmri, dwi |

AWS.tools | R package to use Amazon Web Services |

aylmer | A generalization of Fisher's exact test |

B2Z | Bayesian Two-Zone Model |

b6e6rl | Adaptive differential evolution, b6e6rl variant |

babel | Ribosome profiling data analysis |

BaBooN | Bayesian Bootstrap Predictive Mean Matching - Multiple and single imputation for discrete data |

babynames | US baby names 1880-2013 |

BACCO | Bayesian Analysis of Computer Code Output (BACCO) |

backtest | Exploring portfolio-based conjectures about financial instruments |

BACprior | Sensitivity of the Bayesian Adjustment for Confounding (BAC) algorithm to the choice of hyperparameter omega |

BAEssd | Bayesian Average Error approach to Sample Size Determination |

bagRboostR | Ensemble bagging and boosting classifiers |

BalancedSampling | Balanced and spatially balanced sampling |

BaM | Functions and datasets for books by Jeff Gill |

bamboo | Protein Secondary Structure Prediction Using the Bamboo Method |

bamdit | Bayesian Meta-Analysis of diagnostic test data |

BAMMtools | Analysis and visualization of macroevolutionary dynamics on phylogenetic trees |

bams | Breakpoint annotation model smoothing |

bandit | Functions for simple A/B split test and multi-armed bandit analysis |

BANOVA | Hierarchical Bayesian ANOVA Models |

barcode | Barcode distribution plots |

bark | Bayesian Additive Regresssion Kernels |

bartMachine | Bayesian Additive Regression Trees |

BAS | Bayesian Model Averaging using Bayesian Adaptive Sampling |

base64 | Base 64 encoder/decoder |

base64enc | Tools for base64 encoding |

baseline | Baseline Correction of Spectra |

BASIX | BASIX: An efficient C/C++ toolset for R |

BaSTA | A package for estimating age-specific survival from incomplete capture-recapture/recovery data |

BAT | Biodiversity Assessment Tools |

batade | HTML reports and so on |

batch | Batching Routines in Parallel and Passing Command-Line Arguments to R |

BatchExperiments | Statistical experiments on batch computing clusters |

BatchJobs | Batch computing with R |

batchmeans | Consistent Batch Means Estimation of Monte Carlo Standard Errors |

BayesBridge | Bridge Regression |

bayesclust | Tests/Searches for significant clusters in genetic data |

BayesComm | Bayesian community ecology analysis |

bayescount | Power calculations and Bayesian analysis of count distributions and FECRT data using MCMC |

BayesCR | Bayesian analysis of censored linear regression models with scale mixtures of normal (SMN) distributions |

BayesDA | Functions and Datasets for the book "Bayesian Data Analysis" |

bayesDem | Graphical User Interface for bayesTFR, bayesLife and bayesPop |

BayesFactor | Computation of Bayes factors for common designs |

bayesGARCH | Bayesian Estimation of the GARCH(1,1) Model with Student-t Innovations |

bayesGDS | Functions to implement Generalized Direct Sampling |

BayesGESM | Bayesian Analysis of Generalized Elliptical Semiparametric Models |

Bayesianbetareg | Bayesian Beta regression: joint mean and precision modeling |

BayesLCA | Bayesian Latent Class Analysis |

bayesLife | Bayesian Projection of Life Expectancy |

BayesLogit | Logistic Regression |

bayesm | Bayesian Inference for Marketing/Micro-econometrics |

bayesMCClust | Mixtures-of-Experts Markov Chain Clustering and Dirichlet Multinomial Clustering |

BayesMed | Default Bayesian hypothesis tests for correlation, partial correlation, and mediation |

bayesmix | Bayesian Mixture Models with JAGS |

BayesNI | BayesNI: Bayesian Testing Procedure for Noninferiority with Binary Endpoints |

BayesPen | Bayesian Penalized Credible Regions |

bayesPop | Probabilistic Population Projection |

bayespref | Hierarchical Bayesian analysis of ecological count data |

bayesQR | Bayesian quantile regression |

bayess | Bayesian Essentials with R |

BayesSAE | Bayesian Analysis of Small Area Estimation |

BayesSingleSub | Computation of Bayes factors for interrupted time-series designs |

bayesSurv | Bayesian Survival Regression with Flexible Error and Random Effects Distributions |

bayesTFR | Bayesian Fertility Projection |

Bayesthresh | Bayesian thresholds mixed-effects models for categorical data |

BayesValidate | BayesValidate Package |

BayesVarSel | Bayesian Variable selection in Linear Models |

BayesX | R Utilities Accompanying the Software Package BayesX |

BayesXsrc | R Package Distribution of the BayesX C++ Sources |

BayHap | Bayesian analysis of haplotype association using Markov Chain Monte Carlo |

BayHaz | R Functions for Bayesian Hazard Rate Estimation |

BaylorEdPsych | R Package for Baylor University Educational Psychology Quantitative Courses |

bayou | Bayesian fitting of Ornstein-Uhlenbeck models to phylogenies |

BaySIC | Bayesian Analysis of Significantly Mutated Genes in Cancer |

BAYSTAR | On Bayesian analysis of Threshold autoregressive model (BAYSTAR) |

BB | Solving and Optimizing Large-Scale Nonlinear Systems |

bbefkr | Bayesian bandwidth estimation and semi-metric selection for the functional kernel regression with unknown error density |

bbemkr | Bayesian bandwidth estimation for multivariate kernel regression with Gaussian error |

BBEST | Bayesian Estimation of Incoherent Neutron scattering Backgrounds |

BBmisc | Miscellaneous helper functions for B. Bischl |

bbmle | Tools for general maximum likelihood estimation |

BBMM | Brownian bridge movement model |

bbo | Biogeography-Based Optimization |

BBRecapture | Bayesian Behavioural Capture-Recapture Models |

bc3net | BC3NET |

BCA | Business and Customer Analytics |

BCBCSF | Bias-corrected Bayesian Classification with Selected Features |

BCDating | Business Cycle Dating and Plotting Tools - BCDating |

BcDiag | Diagnostics plots for Bicluster Data |

BCE | Bayesian composition estimator: estimating sample (taxonomic) composition from biomarker data |

BCEA | Bayesian Cost Effectiveness Analysis |

BCEs0 | Bayesian models for cost-effectiveness analysis in the presence of structural zero costs |

Bchron | Radiocarbon dating, age-depth modelling, relative sea level rate estimation, and non-parametric phase modelling |

Bclim | Bayesian Palaeoclimate Reconstruction from Pollen |

bclust | Bayesian clustering using spike-and-slab hierarchical model, suitable for clustering high-dimensional data |

bcool | Bringing to light significant Columns correlated with Organism Labels |

bcp | A Package for Performing a Bayesian Analysis of Change Point Problems |

bcpa | Behavioral change point analysis of animal movement |

bcpmeta | Bayesian Multiple Changepoint Detection Using Metadata |

bcrm | Bayesian continual reassessment method (CRM) designs for Phase I dose-finding trials |

bcv | Cross-Validation for the SVD (Bi-Cross-Validation) |

bda | Density Estimation for Binned/Weighted Data |

BDgraph | Graph estimation based on birth-death MCMC approach |

bdoc | Bayesian Discrete Ordered Classification of DNA Barcodes |

bdpv | Inference and design for predictive values in binary diagnostic tests |

bdsmatrix | Routines for Block Diagonal Symmetric matrices |

bdvis | Biodiversity Data Visualizations |

bdynsys | Bayesian Dynamical System Model |

beadarrayFilter | Bead filtering for Illumina bead arrays |

beadarrayMSV | Analysis of Illumina BeadArray SNP data including MSV markers |

beanplot | Visualization via Beanplots (like Boxplot/Stripchart/Violin Plot) |

BEANSP | Bayesian Estimate of Age-specific Nest Survival Probabilities |

bear | Average bioequivalence and bioavailability data analysis tool |

BEDASSLE | Disentangles the effects of geographic and ecological isolation on genetic differentiation |

beepr | Easily Play Notification Sounds on any Platform |

beeswarm | The bee swarm plot, an alternative to stripchart |

benchden | 28 benchmark densities from Berlinet/Devroye (1994) |

benchmark | Benchmark Experiments Toolbox |

Benchmarking | Benchmark and frontier analysis using DEA and SFA |

benford.analysis | Benford Analysis for data validation and forensic analytics |

BenfordTests | Statistical Tests for Evaluating Conformity to Benford's Law |

bentcableAR | Bent-Cable Regression for Independent Data or Autoregressive Time Series |

BEQI2 | Benthic Ecosystem Quality Index 2 |

ber | Batch Effects Removal |

Bergm | Bayesian analysis for exponential random graph models |

BerlinData | Easy access to Berlin related data |

berryFunctions | function collection related to hydrology, zooming and shapefiles |

Bessel | Bessel – Bessel Functions Computations and Approximations |

BEST | Bayesian Estimation Supersedes the t-Test |

bestglm | Best Subset GLM |

betafam | Detecting rare variants for quantitative traits using nuclear families |

betapart | Partitioning beta diversity into turnover and nestedness components |

betaper | Functions to incorporate taxonomic uncertainty on multivariate analyses of ecological data |

betareg | Beta Regression |

betategarch | Simulation, estimation and forecasting of Beta-Skew-t-EGARCH models |

bethel | Bethel's algorithm |

bezier | Bezier Curve and Spline Toolkit |

bfa | Bayesian Factor Analysis |

bfast | Breaks For Additive Season and Trend (BFAST) |

bfp | Bayesian Fractional Polynomials |

bgeva | Binary Generalized Extreme Value Additive Models |

BGLR | Bayesian Generalized Linear Regression |

bgmm | Gaussian Mixture Modeling algorithms. Including the belief-based mixture modeling |

BGPhazard | Markov beta and gamma processes for modeling hazard rates |

BGSIMD | Block Gibbs Sampler with Incomplete Multinomial Distribution |

BH | Boost C++ header files |

Bhat | General likelihood exploration |

BHH2 | Useful Functions for Box, Hunter and Hunter II |

BHMSMAfMRI | Bayesian hierarchical multi-subject multiscale analysis of functional MRI data |

biasbetareg | Bias correction of the parameter estimates of the beta regression model |

BiasedUrn | Biased Urn model distributions |

bibtex | bibtex parser |

biclust | BiCluster Algorithms |

BiDimRegression | Calculates the bidimensional regression between two 2D configurations |

bifactorial | Inferences for bi- and trifactorial trial designs |

BIFIEsurvey | Some Tools for Survey Statistics in Educational Assessment, Developed by BIFIE |

bigalgebra | BLAS routines for native R matrices and big.matrix objects |

biganalytics | A library of utilities for big.matrix objects of package bigmemory |

bigdata | Big Data Analytics |

bigGP | Distributed Gaussian process calculations |

biglars | Scalable Least-Angle Regression and Lasso |

biglm | bounded memory linear and generalized linear models |

bigmemory | Manage massive matrices with shared memory and memory-mapped files |

bigmemory.sri | A shared resource interface for Bigmemory Project packages |

bigml | R bindings for the BigML API |

bigpca | PCA, transpose and multicore functionality for big.matrix objects |

bigrf | Big Random Forests: Classification and Regression Forests for Large Data Sets |

bigRR | Generalized Ridge Regression (with special advantage for p >> n cases) |

bigsplines | Smoothing splines for large samples |

bigtabulate | table-, tapply-, and split-like functionality for matrix and big.matrix objects |

BigTSP | Top Scoring Pair based methods for classification |

bild | bild: a package for BInary Longitudinal Data |

bimetallic | Power for SNP analyses using silver standard cases |

binda | Multi-Class Discriminant Analysis using Binary Predictors |

bindata | Generation of Artificial Binary Data |

binequality | Methods for Analyzing Binned Income Data |

bingat | Binary Graph Analysis Tools |

binGroup | Evaluation and experimental design for binomial group testing |

binhf | Haar-Fisz functions for binomial data |

binMto | Asymptotic simultaneous confidence intervals for many-to-one comparisons of proportions |

BinNor | Simultaneous generation of multivariate binary and normal variates |

binom | Binomial Confidence Intervals For Several Parameterizations |

binomialcftp | Generates binomial random numbers via the coupling from the past algorithm |

binomlogit | Efficient MCMC for Binomial Logit Models |

binomSamSize | Confidence intervals and sample size determination for a binomial proportion under simple random sampling and pooled sampling |

binomTools | Performing diagnostics on binomial regression models |

binr | Cut Numeric Values Into Evenly Distributed Groups |

binseqtest | Exact Binary Sequential Designs and Analysis |

Biodem | Biodemography functions |

BiodiversityR | GUI for biodiversity, suitability and community ecology analysis |

BioGeoBEARS | BioGeography with Bayesian (and Likelihood) Evolutionary Analysis in R Scripts |

Biograph | Explore life histories |

bio.infer | Predict environmental conditions from biological observations |

biom | An interface package (beta) for the BIOM file format |

BioMark | Find biomarkers in two-class discrimination problems |

biomod2 | Ensemble platform for species distribution modeling |

BIOM.utils | Utilities for the BIOM (Biological Observation Matrix) Format |

bionetdata | Biological and chemical data networks |

biopara | Self-contained parallel system for R |

BioPhysConnectoR | BioPhysConnectoR |

bioPN | Simulation of deterministic and stochastic biochemical reaction networks using Petri Nets |

bios2mds | From BIOlogical Sequences to MultiDimensional Scaling |

BioStatR | Initiation à la Statistique avec R |

biotools | Tools for Biometry and Applied Statistics in Agricultural Science |

bipartite | Visualising bipartite networks and calculating some (ecological) indices |

biplotbootGUI | Bootstrap on Classical Biplots |

BiplotGUI | Interactive Biplots in R |

BIPOD | BIPOD (Bayesian Inference for Partially Observed diffusions) |

birdring | Methods to analyse ring re-encounter data |

birk | MA Birk functions |

bisectr | Tools to find bad commits with git bisect |

BiSEp | Toolkit to identify synthetic lethality and cell line resistance relationships based on bimodality in gene expression data |

bisoreg | Bayesian Isotonic Regression with Bernstein Polynomials |

bit | A class for vectors of 1-bit booleans |

bit64 | A S3 class for vectors of 64bit integers |

bitops | Bitwise Operations |

bivarRIpower | Sample size calculations for bivariate longitudinal data |

biwavelet | Conduct univariate and bivariate wavelet analyses |

biwt | Functions to compute the biweight mean vector and covariance & correlation matrices |

bizdays | Functions to handle business days calculations |

BlakerCI | Blaker's binomial confidence limits |

BlandAltmanLeh | Plots (slightly extended) Bland-Altman plots |

Blaunet | Calculate and Analyze Blau statuses for measuring social distance |

blender | Analyze biotic homogenization of landscapes |

blighty | United Kingdom coastlines |

blkergm | Fitting block ERGM given the block structure on social networks |

blm | Binomial linear and linear-expit regression |

blme | Bayesian Linear Mixed-Effects Models |

blockcluster | Co-Clustering package for binary, contingency, continuous and categorical data-sets |

blockmatrix | blockmatrix: Tools to solve algebraic systems with partitioned matrices |

BlockMessage | Creates strings that show a text message in 8 by 8 block letters |

blockmodeling | An R package for Generalized and classical blockmodeling of valued networks |

blockrand | Randomization for block random clinical trials |

blocksdesign | Nested block designs for unstructured treatments |

blockTools | Block, assign, and diagnose potential interference in randomized experiments |

blowtorch | Constrained optimization via stochastic gradient descent |

BLR | Bayesian Linear Regression |

BMA | Bayesian Model Averaging |

bmd | Benchmark dose analysis for dose-response data |

bmem | Mediation analysis with missing data using bootstrap |

BMhyd | PCM for Hybridization |

Bmix | Bayesian Sampling for Stick-breaking Mixtures |

bmk | MCMC diagnostics package |

bmmix | Bayesian multinomial mixture |

BMN | The pseudo-likelihood method for pairwise binary markov networks |

bmp | Read Windows Bitmap (BMP) images |

bmrm | Bundle Methods for Regularized Risk Minimization Package |

BMS | Bayesian Model Averaging Library |

bnlearn | Bayesian network structure learning, parameter learning and inference |

BNPdensity | Ferguson-Klass type algorithm for posterior normalized random measures |

bnpmr | Bayesian monotonic nonparametric regression |

boa | Bayesian Output Analysis Program (BOA) for MCMC |

boilerpipeR | Interface to the boilerpipe Java library by Christian Kohlschutter (http://code.google.com/p/boilerpipe/) |

BOIN | Bayesian Optimal Interval Design for Phase I Clinical Trials |

bold | Interface to Bold Systems API |

Bolstad | Bolstad functions |

Bolstad2 | Bolstad functions |

boolean3 | Boolean Binary Response Models |

BoolNet | Generation, reconstruction, simulation and analysis of synchronous, asynchronous, and probabilistic Boolean networks |

Boom | Bayesian Object Oriented Modeling |

BoomSpikeSlab | MCMC for spike and slab regression |

boostr | A modular framework to bag or boost any estimation procedure |

boostSeq | Optimized GWAS cohort subset selection for resequencing studies |

boot | Bootstrap Functions (originally by Angelo Canty for S) |

bootES | Bootstrap Effect Sizes |

bootfs | Use multiple feature selection algorithms to derive robust feature sets for two or multiclass classification problems |

bootLR | Bootstrapped confidence intervals for (negative) likelihood ratio tests |

BootPR | Bootstrap Prediction Intervals and Bias-Corrected Forecasting |

bootRes | Bootstrapped Response and Correlation Functions |

bootruin | A bootstrap test for the probability of ruin in the classical risk process |

bootspecdens | Testing equality of spectral densities |

bootStepAIC | Bootstrap stepAIC |

bootstrap | Functions for the Book "An Introduction to the Bootstrap" |

bootSVD | Fast, Exact Bootstrap Principal Component Analysis for High Dimensional Data |

boral | Bayesian Ordination and Regression AnaLysis |

Boruta | A wrapper algorithm for all-relevant feature selection |

boss | Boosted One-Step Statistics: Fast and accurate approximations for GLM, GEE and Mixed models for use in GWAS |

BoSSA | a Bunch of Structure and Sequence Analysis |

boussinesq | Analytic Solutions for (ground-water) Boussinesq Equation |

boxplotdbl | Double Box Plot for Two-Axes Correlation |

bpca | Biplot of Multivariate Data Based on Principal Components Analysis |

bpcp | Beta Product Confidence Procedure for Right Censored Data |

bPeaks | bPeaks: an intuitive peak-calling strategy to detect transcription factor binding sites from ChIP-seq data in small eukaryotic genomes |

bpkde | Back-Projected Kernel Density Estimation |

bqtl | Bayesian QTL mapping toolkit |

BradleyTerry2 | Bradley-Terry Models |

BrailleR | Improved access for blind useRs |

brainR | Helper functions to misc3d and rgl packages for brain imaging |

brainwaver | Basic wavelet analysis of multivariate time series with a visualisation and parametrisation using graph theory |

branchLars | Cost-efficient Variable Selection |

breakage | SICM pipette tip geometry estimation |

breakaway | Species richness estimation and modelling |

breakpoint | An R Package for Multiple Break-Point Detection via the Cross-Entropy Method |

bReeze | Functions for wind resource assessment |

brew | Templating Framework for Report Generation |

brglm | Bias reduction in binomial-response generalized linear models |

bride | Brier score decomposition of probabilistic forecasts for binary events |

brnn | brnn (Bayesian regularization for feed-forward neural networks) |

Brobdingnag | Very large numbers in R |

broman | Karl Broman's R code |

Brq | Bayesian analysis of quantile regression models |

BRugs | R interface to the OpenBUGS MCMC software |

BSagri | Statistical methods for safety assessment in agricultural field trials |

BSDA | Basic Statistics and Data Analysis |

bshazard | Nonparametric Smoothing of the Hazard Function |

BsMD | Bayes Screening and Model Discrimination |

bspec | Bayesian spectral inference |

bspmma | bspmma: Bayesian Semiparametric Models for Meta-Analysis |

BSquare | Bayesian Simultaneous Quantile Regression |

BSSasymp | Asymptotic covariance matrices of some BSS mixing and unmixing matrix estimates |

bst | Gradient Boosting |

bsts | Bayesian structural time series |

btf | Estimates univariate function via Bayesian trend filtering |

BTSPAS | Bayesian Time-Strat. Population Analysis |

BTYD | Implementing Buy 'Til You Die Models |

bujar | Buckley-James Regression for Survival Data with High-Dimensional Covariates |

BurStFin | Burns Statistics Financial |

BurStMisc | Burns Statistics miscellaneous |

bursts | Markov model for bursty behavior in streams |

bvarsv | Bayesian Analysis of a Vector Autoregressive Model with Stochastic Volatility and Time-Varying Parameters |

bvenn | A Simple alternative to proportional Venn diagrams |

bvls | The Stark-Parker algorithm for bounded-variable least squares |

bvpSolve | Solvers for boundary value problems of ordinary differential equations |

BVS | Bayesian Variant Selection: Bayesian Model Uncertainty Techniques for Genetic Association Studies |

c060 | Extended Inference for Lasso and Elastic-Net Regularized Cox and Generalized Linear Models |

c3net | Infering large-scale gene networks with C3NET |

C50 | C5.0 Decision Trees and Rule-Based Models |

ca | Simple, Multiple and Joint Correspondence Analysis |

cabootcrs | Bootstrap Confidence Regions for Correspondence Analysis |

cacIRT | Classification accuracy and consistency under Item Response Theory |

CaDENCE | Conditional Density Estimation Network Construction and Evaluation |

CADFtest | This package performs the CADF unit root test proposed in Hansen (1995) |

cAIC4 | Conditional Akaike information criterion for lme4 |

Cairo | R graphics device using cairo graphics library for creating high-quality bitmap (PNG, JPEG, TIFF), vector (PDF, SVG, PostScript) and display (X11 and Win32) output |

cairoDevice | Cairo-based cross-platform antialiased graphics device driver |

CALIBERrfimpute | Multiple imputation using MICE and Random Forest |

calibrate | Calibration of Scatterplot and Biplot Axes |

calibrator | Bayesian calibration of complex computer codes |

CALINE3 | R interface to Fortran 77 implementation of CALINE3 |

calmate | CalMaTe - Improved allele-specific copy number of SNP arrays for downstream segmentation |

CAMAN | Finite Mixture Models and meta-analysis tools - based on C.A.MAN |

camel | Calibrated Machine Learning |

cancerTiming | Estimation of temporal ordering of cancer abnormalities |

candisc | Visualizing Generalized Canonical Discriminant and Canonical Correlation Analysis |

cape | Combined analysis of pleiotropy and epistasis |

caper | Comparative Analyses of Phylogenetics and Evolution in R |

capm | Companion Animal Population Management |

capme | Covariate Adjusted Precision Matrix Estimation |

capushe | Capushe, data-driven slope estimation and dimension jump |

capwire | Estimates population size from non-invasive sampling |

car | Companion to Applied Regression |

CARBayes | Spatial areal unit modelling |

CARBayesST | Poisson Log-linear Models with Spatio-temporal Random Effects |

carcass | Estimation of the number of fatalities from carcass searches |

cardidates | Identification of Cardinal Dates in Ecological Time Series |

care | High-Dimensional Regression and CAR Score Variable Selection |

CARE1 | Statistical package for population size estimation in capture-recapture models |

caret | Classification and Regression Training |

caribou | Estimation of caribou abundance based on large scale aggregations monitored by radio telemetry |

CarletonStats | Functions For Statistics Classes At Carleton College |

caroline | A Collection of Database, Data Structure, Visualization, and Utility Functions for R |

CARramps | Reparameterized and marginalized posterior sampling for conditional autoregressive models |

CARrampsOcl | Reparameterized and marginalized posterior sampling for conditional autoregressive models, OpenCL implementation |

caschrono | Séries temporelles avec R - Méthodes et cas |

caseMatch | Identify similar cases for qualitative case studies |

cat | Analysis of categorical-variable datasets with missing values |

catdata | Categorical Data |

CatDyn | Fishery Stock Assessment by Catch Dynamic Models |

catenary | Fits a catenary to given points |

cati | Community Assembly by Traits: Individuals and beyond |

catIrt | An R Package for Simulating IRT-Based Computerized Adaptive Tests |

catnet | Categorical Bayesian Network Inference |

caTools | Tools: moving window statistics, GIF, Base64, ROC AUC, etc |

catR | Procedures to generate IRT adaptive tests (CAT) |

catspec | Special models for categorical variables |

causaleffect | Deriving Expressions of Joint Interventional Distributions in Causal Models |

CausalGAM | Estimation of Causal Effects with Generalized Additive Models |

causalsens | Selection Bias Approach to Sensitivity Analysis for Causal Effects |

Causata | Analysis utilities for binary classification and Causata users |

CAvariants | Correspondence Analysis Variants |

cba | Clustering for Business Analytics |

CBPS | R Package for Covariate Balancing Propensity Score |

CCA | Canonical correlation analysis |

CCAGFA | Bayesian canonical correlation analysis and group factor analysis |

ccaPP | (Robust) canonical correlation analysis via projection pursuit |

cccd | Class Cover Catch Digraphs |

ccChooser | Developing a core collections |

cccrm | CCC-RM |

ccda | Combined Cluster and Discriminant Analysis |

ccgarch | Conditional Correlation GARCH models |

cclust | Convex Clustering Methods and Clustering Indexes |

CCM | Correlation classification method (CCM) |

CCMnet | Simulate Congruence Class Model for Networks |

CCP | Significance Tests for Canonical Correlation Analysis (CCA) |

CCpop | One and two locus GWAS of binary phenotype with case-control-population design |

CCTpack | Cultural Consensus Theory applications to data |

cda | Coupled dipole approximation of light scattering by clusters of nanoparticles |

cdb | Reading and Writing Constant DataBases |

CDFt | Statistical downscaling through CDF-transform |

CDLasso | Coordinate Descent Algorithms for Lasso Penalized L1, L2, and Logistic Regression |

CDM | Cognitive Diagnosis Modeling |

CDNmoney | Components of Canadian Monetary and Credit Aggregates |

CDVine | Statistical inference of C- and D-vine copulas |

cec2005benchmark | Benchmark for the CEC 2005 Special Session on Real-Parameter Optimization |

cec2013 | Benchmark functions for the Special Session and Competition on Real-Parameter Single Objective Optimization at CEC-2013 |

celestial | Collection of common astronomical conversion routines |

CellularAutomaton | One-Dimensional Cellular Automata |

cellVolumeDist | Functions to fit cell volume distributions and thereby estimate cell growth rates and division times |

cem | Coarsened Exact Matching |

censNID | censored NID samples |

censReg | Censored Regression (Tobit) Models |

CensRegMod | Fitting Normal and Student-t censored regression model |

cents | Censored time series |

CePa | Centrality-based pathway enrichment |

cepp | Context Driven Exploratory Projection Pursuit |

CerioliOutlierDetection | Outlier detection using the iterated RMCD method of Cerioli (2010) |

cfa | Analysis of configuration frequencies (CFA) |

CfEstimateQuantiles | Estimate quantiles using any order Cornish-Fisher expansion |

cg | The cg package to compare groups |

cgam | Constrained Generalized Additive Model |

cgAUC | Calculate AUC-type measure when gold standard is continuous and the corresponding optimal linear combination of variables with respect to it |

cgdsr | R-Based API for accessing the MSKCC Cancer Genomics Data Server (CGDS) |

cggd | Continuous Generalized Gradient Descent |

cgh | Microarray CGH analysis using the Smith-Waterman algorithm |

cghFLasso | Detecting hot spot on CGH array data with fused lasso regression |

cghseg | Segmentation methods for array CGH analysis |

CGP | Composite Gaussian process models |

cgwtools | My collection of useful tools |

ChainLadder | Statistical methods and models for the calculation of outstanding claims reserves in general insurance |

changeLOS | Change in LOS |

changepoint | An R package for changepoint analysis |

ChargeTransport | Charge Transfer Rates and Charge Carrier Mobilities |

CHAT | Clonal Heterogeneity Analysis Tool |

CHCN | Canadian Historical Climate Network |

cheb | Discrete Linear Chebyshev Approximation |

chebpol | Multivariate Chebyshev interpolation |

CheckDigit | Calculate and verify check digits |

checkmate | Fast and versatile argument checks |

cheddar | Analysis and visualisation of ecological communities |

chemCal | Calibration functions for analytical chemistry |

chemometrics | Multivariate Statistical Analysis in Chemometrics |

ChemometricsWithR | Chemometrics with R - Multivariate Data Analysis in the Natural Sciences and Life Sciences |

ChemometricsWithRData | Data for package ChemometricsWithR |

chemosensors | A tool for the design of synthetic experiments in machine olfaction |

ChemoSpec | Exploratory Chemometrics for Spectroscopy |

cherry | Multiple testing methods for exploratory research |

childsds | Calculation of standard deviation scores adduced from different growth standards |

chillR | Statistical methods for phenology analysis in temperate fruit trees |

chipPCR | Toolkit of helper functions to pre-process amplification data |

chngpt | Change Point Logistic Regression |

CHNOSZ | Chemical Thermodynamics and Activity Diagrams |

ChoiceModelR | Choice Modeling in R |

choplump | Choplump tests |

chords | Estimation in respondent driven samples |

choroplethr | Functions to simplify the creation of choropleths (thematic maps) in R |

chromoR | Analysis of chromosomal interactions data (correction, segmentation and comparison) |

chron | Chronological objects which can handle dates and times |

CHsharp | Choi and Hall Clustering in 3d |

CIDnetworks | Generative models for complex networks with conditionally independent dyadic structure |

CIFsmry | Weighted summary of cumulative incidence functions |

cin | Causal Inference for Neuroscience |

CINID | Curculionidae INstar IDentification |

CINOEDV | Co-Information based N-Order Epistasis Detector and Visualizer |

CircE | Circumplex models Estimation |

circlize | Circular visualization in R |

CircNNTSR | CircNNTSR: An R package for the statistical analysis of circular data using nonnegative trigonometric sums (NNTS) models |

CircStats | Circular Statistics, from "Topics in circular Statistics" (2001) |

circular | Circular Statistics |

cit | Causal Inference Test |

CITAN | CITation ANalysis toolpack |

citbcmst | CIT Breast Cancer Molecular SubTypes Prediction |

citccmst | CIT Colon Cancer Molecular SubTypes Prediction |

CityPlot | Visualization of structure and contents of a database |

Ckmeans.1d.dp | Optimal k-means clustering for one-dimensional data |

cladoRcpp | C++ implementations of phylogenetic cladogenesis calculations |

CLAG | An unsupervised non hierarchical clustering algorithm handling biological data |

class | Functions for Classification |

classGraph | Construct Graphs of S4 Class Hierarchies |

classifly | Explore classification models in high dimensions |

classify | Classification Accuracy and Consistency under IRT models |

classInt | Choose univariate class intervals |

classyfire | Robust multivariate classification using highly optimised SVM ensembles |

clere | CLERE methodology for simultaneous variables clustering and regression |

clhs | Conditioned Latin Hypercube Sampling |

ClickClust | Model-Based Clustering of Categorical Sequences |

clickstream | Analyzes clickstreams based on Markov chains |

climdex.pcic | PCIC implementation of Climdex routines |

clime | Constrained L1-minimization for Inverse (covariance) Matrix Estimation |

clinfun | Clinical Trial Design and Data Analysis Functions |

clinsig | Clinical significance functions |

clinUtiDNA | Clinical Utility of DNA Testing |

clogitL1 | Fitting exact conditional logistic regression with lasso and elastic net penalties |

cloudUtil | Cloud Util Plots |

clpAPI | R Interface to C API of COIN-OR Clp |

CLSOCP | A smoothing Newton method SOCP solver |

clue | Cluster ensembles |

clues | Clustering Method Based on Local Shrinking |

cluster | Cluster Analysis Extended Rousseeuw et al |

cluster.datasets | Cluster Analysis Data Sets |

clusterfly | Explore clustering interactively using R and GGobi |

clustergas | A hierarchical clustering method based on genetic algorithms |

clusterGeneration | random cluster generation (with specified degree of separation) |

clusterGenomics | Identifying clusters in genomics data by recursive partitioning |

clusterPower | Power calculations for cluster-randomized and cluster-randomized crossover trials |

clusterRepro | Reproducibility of gene expression clusters |

clusterSim | Searching for optimal clustering procedure for a data set |

clusteval | Evaluation of Clustering Algorithms |

clusthaplo | Clustering of haplotypes |

clustMD | Model based clustering for mixed data |

ClustOfVar | Clustering of variables |

clustrd | Methods for joint dimension reduction and clustering |

clustsig | Significant Cluster Analysis |

ClustVarLV | Clustering of variables around Latent Variables |

clustvarsel | Variable Selection for Model-Based Clustering |

clv | Cluster Validation Techniques |

clValid | Validation of Clustering Results |

cmaes | Covariance Matrix Adapting Evolutionary Strategy |

CMC | Cronbach-Mesbah Curve |

CMF | Collective matrix factorization |

cmm | Categorical Marginal Models |

CMPControl | Control Charts for Conway-Maxwell-Poisson Distribution |

cmprsk | Subdistribution Analysis of Competing Risks |

cmrutils | Misc Functions of the Center for the Mathematical Research |

cmvnorm | Complex multivariate Gaussian distribution |

cna | Coincidence Analysis (CNA) |

cncaGUI | Canonical Non-symmetrical Correspondence Analysis in R |

CNOGpro | Copy Numbers of Genes in prokaryotes |

CNprep | pre-process DNA copy number (CN) data for detection of CN events |

CNVassoc | Association analysis of CNV data |

CNVassocData | Example data sets for association analysis of CNV data |

coalescentMCMC | MCMC Algorithms for the Coalescent |

coarseDataTools | A collection of functions to help with analysis of coarsely observed data |

COBRA | Nonlinear Aggregation of Predictors |

cobs | COBS – Constrained B-splines (Sparse matrix based) |

cobs99 | Constrained B-splines – outdated 1999 version |

CoClust | Copula based cluster analysis |

cocor | Comparing correlations |

cocorresp | Co-correspondence analysis methods |

cocron | Statistical comparisons of two or more alpha coefficients |

coda | Output analysis and diagnostics for MCMC |

codadiags | Markov chain Monte Carlo burn-in based on "bridge" statistics |

codep | Multiscale Codependence Analysis |

codetools | Code Analysis Tools for R |

coefficientalpha | Robust Cronbach's alpha with missing and non-normal data |

coefplot | Plots Coefficients from Fitted Models |

coenocliner | Coenocline simulation |

coexist | Species coexistence modeling and analysis |

CoImp | Copula based imputation method |

coin | Conditional Inference Procedures in a Permutation Test Framework |

CoinMinD | Simultaneous Confidence Interval for Multinomial Proportion |

cold | cold: a package for Count Longitudinal Data |

CollocInfer | Collocation Inference for Dynamic Systems |

coloc | Colocalisation tests of two genetic traits |

colorfulVennPlot | Plot and add custom coloring to Venn diagrams for 2-dimensional, 3-dimensional and 4-dimensional data |

colorRamps | Builds color tables |

colorscience | Color Science methods and data |

colorspace | Color Space Manipulation |

colortools | Tools for colors in a Hue-Saturation-Value (HSV) color model |

colourlovers | R client for the COLOURlovers API |

comato | Analysis of Concept Maps |

combinat | combinatorics utilities |

CombinS | Constructions method of rectangular PBIB and rectangular right angular PBIB(m) (m= 4,5 and 7) designs |

CombMSC | Combined Model Selection Criteria |

comclim | Community climate statistics |

commandr | Command pattern in R |

CommonJavaJars | Useful libraries for building a Java based GUI under R |

CommonTrend | Extract and plot common trends from a cointegration system. Calculate P-value for Johansen Statistics |

CommunityCorrelogram | Ecological Community Correlogram |

comorbidities | Categorizes ICD-9-CM codes based on published comorbidity indices |

Comp2ROC | Compare two ROC curves that intersect |

compactr | Creates empty plots with compact axis notation |

compare | Comparing Objects for Differences |

compareGroups | Descriptive analysis by groups |

compareODM | comparison of medical forms in CDISC ODM format |

CompareTests | Estimate diagnostic accuracy (sensitivity, specificity, etc) and agreement statistics when one test is conducted on only a subsample of specimens |

comparison | Multivariate likelihood ratio calculation and evaluation |

compeir | Event-specific incidence rates for competing risks data |

compendiumdb | Tools for Storage and Retrieval of Gene Expession Data |

CompGLM | Conway-Maxwell-Poisson GLM and distribution functions |

compHclust | Complementary Hierarchical Clustering |

Compind | Composite indicators functions |

complex.surv.dat.sim | Simulation of complex survival data |

complmrob | Robust linear regression with compositional data as covariates |

CompLognormal | Functions for actuarial scientists |

compoisson | Conway-Maxwell-Poisson Distribution |

COMPoissonReg | Conway-Maxwell Poisson (COM-Poisson) Regression |

compositions | Compositional Data Analysis |

compound.Cox | Regression estimation based on the compound covariate method under the Cox proportional hazard model |

Compounding | Computing Continuous Distributions |

CompQuadForm | Distribution function of quadratic forms in normal variables |

CompRandFld | Composite-likelihood based Analysis of Random Fields |

compute.es | Compute Effect Sizes |

ConConPiWiFun | This package contains an implementation of continuous convex piecewise (linear and quadratic) functions |

concor | Concordance |

concreg | Concordance regression |

cond | Approximate conditional inference for logistic and loglinear models |

condGEE | Parameter estimation in conditional GEE for recurrent event gap times |

condmixt | Conditional Density Estimation with Neural Network Conditional Mixtures |

CondReg | Condition Number Regularized Covariance Estimation |

coneproj | Primal or Dual Cone Projections with Routines for Constrained Regression |

conf.design | Construction of factorial designs |

confidence | Confidence Estimation of Environmental State Classifications |

confreq | Configural Frequencies Analysis Using Loglinear Modeling |

conicfit | Algorithms for fitting circles, ellipses and conics based on the work by Prof. Nikolai Chernov |

conics | Plot Conics |

conjoint | Conjoint analysis package |

ConjointChecks | A package to check the cancellation axioms of conjoint measurement |

ConnMatTools | Tools for working with connectivity matrices |

constrainedKriging | Constrained, covariance-matching constrained and universal point or block kriging |

contfrac | Continued fractions |

conting | Bayesian analysis of contingency tables |

contrast | A collection of contrast methods |

ConvCalendar | Converts dates between calendars |

ConvergenceConcepts | Seeing convergence concepts in action |

convexHaz | Nonparametric MLE/LSE of convex hazard |

cooccur | Probabilistic Species Co-occurrence Analysis in R |

cooptrees | Cooperative aspects of optimal trees in weighted graphs |

COP | Variables selection for index models via correlation pursuit |

COPASutils | Tools for processing COPAS large-particle flow cytometer data |

copBasic | Basic Theoretical Copula, Empirical Copula, and Various Utility Functions |

copCAR | Fitting the copCAR regression model for discrete areal data |

copula | Multivariate Dependence with Copulas |

copulaedas | Estimation of Distribution Algorithms Based on Copulas |

CopulaRegression | Bivariate Copula Based Regression Models |

CopyDetect | Computing Statistical Indices to Detect Answer Copying on Multiple-Choice Tests |

corclass | Correlational Class Analysis |

corcounts | Generate correlated count random variables |

CORE | Cores of Recurrent Events |

CORElearn | Classification, regression, feature evaluation and ordinal evaluation |

coreTDT | TDT for compound heterozygous and recessive models |

corHMM | Analysis of binary character evolution |

CORM | The Clustering of Regression Models Method |

corpcor | Efficient Estimation of Covariance and (Partial) Correlation |

corpora | Statistics and data sets for corpus frequency data |

CorrBin | Nonparametrics with clustered binary and multinomial data |

CorReg | Linear regression based on linear structure between covariates |

correlate | Multivariate Data Generation by Permutation |

Correlplot | A collection of functions for graphing correlation matrices |

corrgram | Plot a correlogram |

corrplot | Visualization of a correlation matrix |

corrsieve | CorrSieve |

corTools | Tools for processing data after a Genome Wide Association Study |

COSINE | COndition SpecIfic sub-NEtwork |

cosinor | Tools for estimating and predicting the cosinor model |

cosmoFns | Functions for cosmological distances, times, luminosities, etc |

CosmoPhotoz | Photometric redshift estimation using generalized linear models |

cosmosR | cosmosR |

cosso | Fit Regularized Nonparametric Regression Models Using COSSO Penalty |

costat | Time series costationarity determination |

cotrend | Consistant Cotrend Rank Selection |

couchDB | Connect and work with couchDB databases |

COUNT | Functions, data and code for count data |

countrycode | Convert country names and country codes |

CountsEPPM | Mean and variance modeling of count data |

covLCA | Latent Class Models with Covariate Effects on Underlying and Measured Variables |

covreg | A simultaneous regression model for the mean and covariance |

covRobust | Robust Covariance Estimation via Nearest Neighbor Cleaning |

CovSel | Model-Free Covariate Selection |

covTest | Computes covariance test for adaptive linear modelling |

CoxBoost | Cox models by likelihood based boosting for a single survival endpoint or competing risks |

coxinterval | Cox-type models for interval-censored data |

coxme | Mixed Effects Cox Models |

coxphf | Cox regression with Firth's penalized likelihood |

coxphw | Weighted Estimation in Cox Regression |

CoxRidge | Cox models with dynamic ridge penalties |

coxrobust | Robust Estimation in Cox Model |

cpa | Confirmatory Path Analysis through the d-sep tests |

cpca | Methods to perform Common Principal Component Analysis (CPCA) |

CPE | Concordance Probability Estimates in Survival Analysis |

CpGassoc | Association between Methylation and a phenotype of interest |

CPHshape | Find the maximum likelihood estimator of the shape constrained hazard baseline and the effect parameters in the Cox proportional hazards model |

cpk | Clinical Pharmacokinetics |

cplexAPI | R Interface to C API of IBM ILOG CPLEX |

cplm | Compound Poisson linear models |

CPMCGLM | Correction of the pvalue after multiple coding |

Cprob | Conditional probability function of a competing event |

CR | Power Calculation for Weighted Log-Rank Tests in Cure Rate Models |

CRAC | Cosmology R Analysis Code |

crackR | Probabilistic damage tolerance analysis for fatigue cracking of metallic aerospace structures |

cramer | Multivariate nonparametric Cramer-Test for the two-sample-problem |

crank | Completing ranks |

crantastic | Various R tools for http://crantastic.org/ |

crawl | Fit continuous-time correlated random walk models to animal movement data |

crayon | Colored Terminal Output |

crblocks | Categorical Randomized Block Data Analysis |

crch | Censored Regression with Conditional Heteroscedasticity |

CreditMetrics | Functions for calculating the CreditMetrics risk model |

CRF | CRF - Conditional Random Fields |

crimCV | Group-Based Modelling of Longitudinal Data |

CRM | Continual Reassessment Method (CRM) for Phase I Clinical Trials |

crmn | CCMN and other noRMalizatioN methods for metabolomics data |

crn | Downloads and Builds datasets for Climate Reference Network |

crossdes | Construction of Crossover Designs |

crossmatch | The Cross-match Test |

Crossover | Crossover Designs |

crossReg | Confidence intervals for crossover points of two simple regression lines |

crossval | Generic Functions for Cross Validation |

crp.CSFP | CreditRisk+ portfolio model |

crqa | Cross-Recurrence Quantification Analysis for Categorical and Continuous Time-Series |

crrSC | Competing risks regression for Stratified and Clustered data |

crrstep | Stepwise covariate selection for the Fine & Gray competing risks regression model |

crs | Categorical Regression Splines |

CRTSize | Sample Size Estimation Functions for Cluster Randomized Trials |

CrypticIBDcheck | Identifying cryptic relatedness in genetic association studies |

csampling | Functions for Conditional Simulation in Regression-Scale Models |

cSFM | Covariate-adjusted Skewed Functional Model (cSFM) |

cshapes | CShapes Dataset and Utilities |

cslogistic | Conditionally Specified Logistic Regression |

csn | Closed-skew normal distribution |

CSS | Extract information from an html document with CSS selectors |

csSAM | csSAM - cell-specific Significance Analysis of Microarrays |

cstar | Substantive significance testing for regression estimates and marginal effects |

csvread | Fast Specialized CSV File Loader |

cts | Continuous Time Autoregressive Models |

CTT | Classical Test Theory Functions |

ctv | CRAN Task Views |

cubature | Adaptive multivariate integration over hypercubes |

cubfits | Codon Usage Bias Fits |

Cubist | Rule- and Instance-Based Regression Modeling |

cudaBayesreg | CUDA Parallel Implementation of a Bayesian Multilevel Model for fMRI Data Analysis |

cudaBayesregData | Data sets for the examples used in the package "cudaBayesreg" |

cudia | CUDIA Cross-level Imputation |

CUMP | Analyze Multivariate Phenotypes by Combining Univariate results |

cumplyr | Extends ddply to allow calculation of cumulative quantities |

cumSeg | Change point detection in genomic sequences |

currentSurvival | Estimation of CCI and CLFS Functions |

curvetest | The package will formally test two curves represented by discrete data sets to be statistically equal or not when the errors of the two curves were assumed either equal or not using the tube formula to calculate the tail probabilities |

curvHDR | curvHDR filtering of flow cytometry samples |

cutoffR | CUTOFF: A Spatio-temporal Imputation Method |

cuttlefish.model | An R package to perform LPUE standardization and stock assessment of the English Channel cuttlefish stock using a two-stage biomass model |

cvAUC | Cross-Validated Area Under the ROC Curve Confidence Intervals |

CVcalibration | Estimation of the Calibration Equation with Error-in Observations |

CVD | Color Vision Deficiencies |

cvplogistic | Penalized Logistic Regression Model using Majorization Minimization by Coordinate Descent (MMCD) Algorithm |

cvq2 | Calculate the predictive squared correlation coefficient |

CVST | Fast Cross-Validation via Sequential Testing |

CVThresh | Level-Dependent Cross-Validation Thresholding |

cvTools | Cross-validation tools for regression models |

CVTuningCov | Regularized Estimators of Covariance Matrices with CV Tuning |

cvxclustr | Splitting methods for convex clustering |

cwm | Cluster Weighted Models by EM algorithm |

cxxfunplus | extend cxxfunction by saving the dynamic shared objects |

cycloids | cycloids |

cyphid | Cycle and Phase Identification for mastication data |

cytoDiv | Cytometric diversity indices |

d3Network | Tools for creating D3 JavaScript network, tree, dendrogram, and Sankey graphs from R |

DAAG | Data Analysis And Graphics data and functions |

DAAGbio | Data Sets and Functions, for demonstrations with expression arrays and gene sequences |

DAAGxtras | Data Sets and Functions, supplementary to DAAG |

dae | Functions useful in the design and ANOVA of experiments |

daewr | Design and Analysis of Experiments with R |

dafs | Data analysis for forensic scientists |

dagbag | Learning directed acyclic graphs (DAGs) through bootstrap aggregating |

DAGGER | Consensus genetic maps |

dagR | R functions for directed acyclic graphs |

Daim | Diagnostic accuracy of classification models |

DAKS | Data Analysis and Knowledge Spaces |

DALY | DALY Calculator - A GUI for stochastic DALY calculation in R |

DAMisc | Dave Armstrong's Miscellaneous Functions |

dams | Dams in the United States from the National Inventory of Dams (NID) |

DandEFA | Dandelion Plot for R-mode Exploratory Factor Analysis |

darch | Package for deep architectures and Restricted-Bolzmann-Machines |

darts | Statistical Tools to Analyze Your Darts Game |

DatABEL | file-based access to large matrices stored on HDD in binary format |

datacheck | Tools for checking data consistency |

DataCombine | R tools for making it easier to combine and clean data sets |

dataframes2xls | dataframes2xls writes data frames to xls files |

datalist | An R package to convert data sets for import into JAGS, WinBUGS and OpenBUGS and to generate data.frames for predicting the effects of particular variables |

datamap | A system for mapping foreign objects to R variables and environments |

datamart | Unified access to your data sources |

datamerge | Merging of overlapping and inconsistent data |

dataQualityR | Performs variable level data quality checks and generates summary statistics |

data.table | Extension of data.frame |

datautils | Support functions for packages VBmix, semisupKernelPCA, and patchPlot |

dataview | Human readable data presentation |

date | Functions for handling dates |

DATforDCEMRI | Deconvolution Analysis Tool for Dynamic Contrast Enhanced MRI |

dave | Functions for "Data Analysis in Vegetation Ecology" |

Davies | The Davies quantile function |

dawai | Discriminant analysis with additional information |

dbarts | Discrete Bayesian Additive Regression Trees Sampler |

dbConnect | Provides a graphical user interface to connect with databases that use MySQL |

dbEmpLikeGOF | Goodness-of-fit and two sample comparison tests using sample entropy |

dbEmpLikeNorm | Test for joint assessment of normality |

DBFTest | DBF test of no difference between groups |

DBGSA | methods of distance-based gene set functional enrichment analysis |

DBI | R Database Interface |

DBKGrad | Discrete Beta Kernel Graduation of Mortality Data |

dblcens | Compute the NPMLE of distribution from doubly censored data |

dbmss | Distance-based measures of spatial structures |

dbstats | Distance-based statistics (dbstats) |

dcemriS4 | A Package for Medical Image Analysis (S4 implementation) |

DCGL | Differential Co-expression Analysis and Differential Regulation Analysis of Gene Expression Microarray Data |

dcGOR | Analysis of ontologies and protein domain annotations |

DCL | Claims Reserving under the Double Chain Ladder Model |

dclone | Data Cloning and MCMC Tools for Maximum Likelihood Methods |

DCluster | Functions for the detection of spatial clusters of diseases |

dcmle | Hierarchical Models Made Easy with Data Cloning |

dcmr | Attribute profile estimation using Diagnostic Classification Models and MCMC |

dcv | Conventional Cross-validation statistics for climate-growth model |

ddalpha | DDalpha-classifier, depth-calculating methods and associated functions |

DDD | Diversity-dependent diversification |

ddepn | Dynamic Deterministic Effects Propagation Networks: Infer signalling networks for timecourse RPPA data |

DDHFm | Variance Stabilization by Data-Driven Haar-Fisz (for Microarrays) |

DDIwR | DDI related functions |

ddst | Data driven smooth test |

deal | Learning Bayesian Networks with Mixed Variables |

deamer | Deconvolution density estimation with adaptive methods for a variable prone to measurement error |

debug | MVB's debugger for R |

decctools | Get energy data from the UK Dept of Energy and Climate Change |

DECIDE | DEComposition of Indirect and Direct Effects |

decompr | Export Decomposition (Wang-Wei-Zhu and source) |

decon | Deconvolution Estimation in Measurement Error Models |

Deducer | Deducer: A data analysis GUI for R |

DeducerExtras | Additional dialogs and functions for Deducer |

DeducerPlugInExample | Deducer Plug-in Example |

DeducerPlugInScaling | Reliability and factor analysis plugin |

DeducerSpatial | Deducer for spatial data analysis |

DeducerSurvival | Add Survival Dialogue to Deducer |

DeducerText | Deducer GUI for Text Data |

deducorrect | deducorrect: Deductive correction, deductive imputation, and deterministic correction |

deepnet | deep learning toolkit in R |

Defaults | Create Global Function Defaults |

degenes | Detection of differentially expressed genes |

degreenet | Models for Skewed Count Distributions Relevant to Networks |

Delaporte | Statistical functions for the Delaporte distribution |

deldir | Delaunay Triangulation and Dirichlet (Voronoi) Tessellation |

deltaPlotR | Identification of dichotomous differential item functioning (DIF) using Angoff's Delta Plot method |

Demerelate | Functions to calculate relatedness on diploid genetic data |

DEMEtics | Evaluating the genetic differentiation between populations based on Gst and D values |

demi | Differential Expression from Multiple Indicators |

deming | Deming, Thiel-Sen and Passing-Bablock Regression |

demography | Forecasting mortality, fertility, migration and population data |

demoKde | Kernel Density Estimation for Demonstration Purposes |

dendextend | Extending R's dendrogram functionality |

dendextendRcpp | Faster dendrogram manipulation using Rcpp |

dendroextras | Extra functions to cut, label and colour dendrogram clusters |

DendSer | Dendrogram seriation: ordering for visualisation |

dendsort | Modular Leaf Ordering Methods for Dendrogram Nodes |

denpro | Visualization of multivariate, functions, sets, and data |

densityClust | Clustering by fast search and find of density peaks |

Density.T.HoldOut | Density.T.HoldOut: Non-combinatorial T-estimation Hold-Out for density estimation |

denstrip | Density strips and other methods for compactly illustrating distributions |

DEoptim | Global optimization by Differential Evolution |

DEoptimR | Differential Evolution Optimization in pure R |

depend.truncation | Statistical inference for parametric and semiparametric models based on dependently truncated data |

depmix | Dependent Mixture Models |

depmixS4 | Dependent Mixture Models - Hidden Markov Models of GLMs and Other Distributions in S4 |

depth | Depth functions tools for multivariate analysis |

DepthProc | DepthProc |

depthTools | Depth Tools Package |

descomponer | Seasonal adjustment by frequency analysis |

descr | Descriptive statistics |

DescribeDisplay | R interface to DescribeDisplay (GGobi plugin) |

DescTools | Tools for descriptive statistics |

deseasonalize | Optimal deseasonalization for geophysical time series using AR fitting |

designGG | Computational tool for designing genetical genomics experiments |

desirability | Desirabiliy Function Optimization and Ranking |

desire | Desirability functions in R |

DESnowball | Bagging with Distance-based Regression for Differential Gene Expression Analyses |

deSolve | General Solvers for Initial Value Problems of Ordinary Differential Equations (ODE), Partial Differential Equations (PDE), Differential Algebraic Equations (DAE), and Delay Differential Equations (DDE) |

detect | Analyzing Wildlife Data with Detection Error |

deTestSet | Testset for differential equations |

detrendeR | Start the detrendeR Graphical User Interface (GUI) |

DetSel | A computer program to detect markers responding to selection |

devEMF | EMF graphics output device |

Devore7 | Data sets from Devore's "Prob and Stat for Eng (7th ed)" |

devtools | Tools to make developing R code easier |

df2json | Convert a dataframe to JSON |

dfcrm | Dose-finding by the continual reassessment method |

dfexplore | Explore data.frames by plotting NA and classes of each variable |

DFIT | Differential Functioning of Items and Tests (DFIT) framework analyses |

dfoptim | Derivative-free Optimization |

dglars | Differential Geometric LARS (dgLARS) method |

dglm | Double generalized linear models |

dgmb | dgmb Simulating data for PLS structural models |

dgof | Discrete Goodness-of-Fit Tests |

dhglm | Double Hierarchical Generalized Linear Models |

diagram | Functions for visualising simple graphs (networks), plotting flow diagrams |

DiagTest3Grp | Diagnostic test summary measures for three ordinal groups |

diaplt | Beads Summary Plot of Ranges |

dice | Calculate probabilities of various dice-rolling events |

DiceDesign | Designs of Computer Experiments |

DiceEval | Construction and evaluation of metamodels |

DiceKriging | Kriging methods for computer experiments |

DiceOptim | Kriging-based optimization for computer experiments |

DiceView | Plot methods for computer experiments design and surrogate |

dichromat | Color Schemes for Dichromats |

dicionariosIBGE | Dictionaries for reading microdata surveys from IBGE |

dielectric | Defines some physical constants and dielectric functions commonly used in optics, plasmonics |

DierckxSpline | R companion to "Curve and Surface Fitting with Splines" |

diffdepprop | Calculates Confidence Intervals for two Dependent Proportions |

diffEq | Functions from the book Solving Differential Equations in R |

diffIRT | Diffusion IRT models for Response and Response Time Data |

diffractometry | Baseline identification and peak decomposition for x-ray diffractograms |

diffusionMap | Diffusion map |

DIFlasso | A penalty approach to Differential Item Functioning in Rasch Models |

difR | Collection of methods to detect dichotomous differential item functioning (DIF) in psychometrics |

digest | Create cryptographic hash digests of R objects |

Digiroo2 | An application programming interface for generating null models of social contacts based on individuals' space use |

dils | Data-Informed Link Strength. Combine multiple-relationship networks into a single weighted network. Impute (fill-in) missing network links |

DIME | DIME (Differential Identification using Mixture Ensemble) |

dinamic | DiNAMIC A Method To Analyze Recurrent DNA Copy Number Aberrations in Tumors |

diptest | Hartigan's dip test statistic for unimodality - corrected code |

DIRECT | Bayesian Clustering of Multivariate Data Under the Dirichlet-Process Prior |

directlabels | Direct labels for multicolor plots in lattice or ggplot2 |

directPA | Direction Pathway Analysis |

DirichletReg | Dirichlet Regression in R |

dirmult | Estimation in Dirichlet-Multinomial distribution |

Disake | Discrete associated kernel estimators |

disclap | Discrete Laplace Exponential Family |

disclapmix | Discrete Laplace mixture inference using the EM algorithm |

DiscML | DiscML: An R package for estimating evolutionary rates of discrete characters using maximum likelihood |

DiscreteInverseWeibull | Discrete inverse Weibull distribution |

DiscreteLaplace | Discrete Laplace distribution |

discreteMTP | Multiple testing procedures for discrete test statistics |

discreteRV | Functions to create and manipulate discrete random variables |

DiscreteWeibull | Discrete Weibull distribution |

discretization | Data preprocessing, discretization for classification |

discrimARTs | Discrimination of Alternative Reproductive Tactics (ARTs) |

DiscriMiner | Tools of the Trade for Discriminant Analysis |

diseasemapping | Calculate observed and expected disease incidence counts from a case file and population data |

diskmemoiser | Disk Memoisation For R |

dismo | Species distribution modeling |

disp2D | 2D Hausdorff and Simplex Dispersion Orderings |

displayHTS | displayHTS |

dispmod | Dispersion models |

dissUtils | Utilities for making pairwise comparisons of multivariate data |

Distance | A simple way to fit detection functions to distance sampling data and calculate abundance/density for biological populations |

DistatisR | DiSTATIS Three Way Metric Multidimensional Scaling |

distfree.cr | Distribution-free confidence region (distfree.cr) |

distillery | Method Functions for Confidence Intervals and to Distill Information from an Object |

distory | Distance Between Phylogenetic Histories |

distr | Object oriented implementation of distributions |

distrDoc | Documentation for packages distr, distrEx, distrSim, distrTEst, distrTeach, distrMod, and distrEllipse |

distrEllipse | S4 classes for elliptically contoured distributions |

distrEx | Extensions of package distr |

DistributionUtils | Distribution Utilities |

distrMod | Object oriented implementation of probability models |

distrom | Distributed Multinomial Regression |

distrRmetrics | Package distr classes for distributions from Rmetrics |

distrSim | Simulation classes based on package distr |

distrTeach | Extensions of package distr for teaching Stochastics/Statistics in secondary school |

distrTEst | Estimation and Testing classes based on package distr |

divagis | Provides tools for quality checks of georeferenced plant species accessions |

DivE | Diversity Estimator |

diveMove | Dive analysis and calibration |

diversitree | diversitree: comparative phylogenetic analyses of diversification |

diveRsity | diveRsity: Genetic diversity partition statistics and Informative locus selection using Fst, Gst, Dest(Jost Chao) G'st and In |

DiversitySampler | Functions for re-sampling a community matrix to compute diversity indices at different sampling levels |

DivMelt | HRM Diversity Assay Analysis Tool |

dixon | Nearest Neighbour Contingency Table Analysis |

dkDNA | Diffusion kernels on a set of genotypes |

dlm | Bayesian and Likelihood Analysis of Dynamic Linear Models |

dlmap | Detection Localization Mapping for QTL |

dlmodeler | Generalized Dynamic Linear Modeler |

DLMtool | Data-Limited Methods Toolkit |

dlnm | Distributed Lag Non-linear Models |

dma | Dynamic model averaging |

DMR | Delete or Merge Regressors for linear model selection |

dmt | Dependency Modeling Toolkit |

DMwR | Functions and data for "Data Mining with R" |

dna | Differential Network Analysis |

DNAprofiles | DNA profiling evidence analysis |

DNAtools | Tools for analysing forensic genetic DNA data |

DnE | DnE(Distribution and Equation) |

dnet | Integrative analysis of omics data in terms of network, evolution and ontology |

DOBAD | Analysis of Discretely Observed linear Birth-And-Death(-and-immigration) Markov Chains |

doBy | doBy - Groupwise summary statistics, LSmeans, general linear contrasts, various utilities |

docopt | docopt, command-line interface specification language |

documair | Automatic Documentation for R packages |

Dodge | Functions for Acceptance Sampling Ideas originated by H.F. Dodge |

DoE.base | Full factorials, orthogonal arrays and base utilities for DoE packages |

DoE.wrapper | Wrapper package for design of experiments functionality |

doMC | Foreach parallel adaptor for the multicore package |

Dominance | ADI (average dominance index), social network graphs with dual directions, and music notation graph |

domino | Domino Data Lab R console bindings |

doMPI | Foreach parallel adaptor for the Rmpi package |

doParallel | Foreach parallel adaptor for the parallel package |

doRedis | Foreach parallel adapter for the rredis package |

doRNG | Generic Reproducible Parallel Backend for foreach Loops |

DoseFinding | Planning and Analyzing Dose Finding experiments |

doSNOW | Foreach parallel adaptor for the snow package |

dosresmeta | Performing multivariate dose-response meta-analysis |

dostats | Compute statistics helper functions |

dotenv | Load environment variables from .env |

DoubleCone | Test against parametric regression function |

DoubleExpSeq | Differential Exon Usage Test for RNA-Seq data via Empirical Bayes Shrinkage of the Dispersion Parameter |

downloader | A package for downloading files over http and https |

dpa | Dynamic Path Approach |

dpcR | Digital PCR Analysis |

dpglasso | Primal Graphical Lasso |

dplR | Dendrochronology Program Library in R |

dplyr | dplyr: a grammar of data manipulation |

dpmixsim | Dirichlet Process Mixture model simulation for clustering and image segmentation |

DPpackage | Bayesian nonparametric modeling in R |

DPw | Semiparametric Bayesian procedure for selecting a subset containing the weakest species with an acceptably high probability |

dr | Methods for dimension reduction for regression |

drawExpression | Visualising R syntax through graphics |

drc | Analysis of dose-response curve data |

drfit | Dose-response data evaluation |

drgee | Doubly Robust Generalized Estimating Equations |

DRI | DR-Integrator |

drm | Regression and association models for repeated categorical data |

drmdel | Dual empirical likelihood inference under density ratio models in the presence of multiple samples |

drsmooth | Dose-Response Modeling with Smoothing Splines |

ds | Descriptive Statistics |

dsample | Discretization-based Direct Random Sample Generation |

DSBayes | Bayesian subgroup analysis in clinical trials |

dse | Dynamic Systems Estimation (time series package) |

dse1 | DSE (unbundled transition package) |

dse2 | DSE (unbundled transition package) |

DSL | Distributed Storage and List |

dslice | Dynamic slicing |

dsm | Density surface modelling of distance sampling data |

DSpat | Spatial modelling for distance sampling data |

DSsim | Distance Sampling Simulations |

DStree | Recursive Partitioning for Discrete-Time Survival Trees |

DTComPair | Comparison of Binary Diagnostic Tests in a Paired Study Design |

DTDA | Doubly truncated data analysis |

dti | Analysis of diffusion weighted imaging (DWI) data |

DTK | Dunnett-Tukey-Kramer Pairwise Multiple Comparison Test Adjusted for Unequal Variances and Unequal Sample Sizes |

DTMCPack | Suite of functions related to discrete-time discrete-state Markov Chains |

DTR | Estimation and comparison of dynamic treatment regimes |

dtt | Discrete Trigonometric Transforms |

dtw | Dynamic time warping algorithms |

dualScale | Dual Scaling Analysis of Multiple Choice Data |

dummies | Create dummy/indicator variables flexibly and efficiently |

DunnettTests | Software implementation of step-down and step-up Dunnett test procedures |

dunn.test | Dunn's test of multiple comparisons using rank sums |

dupiR | Bayesian inference from count data using discrete uniform priors |

dvfBm | Discrete variations of a fractional Brownian motion |

dvn | Access to The Dataverse Network APIs |

dyn | Time Series Regression |

DynamicDistribution | Dynamically visualized probability distributions and their moments |

dynamicGraph | dynamicGraph |

dynamicTreeCut | Methods for detection of clusters in hierarchical clustering dendrograms |

dynatopmodel | Implementation of the Dynamic TOPMODEL hydrological model |

dynaTree | Dynamic trees for learning and design |

dynBiplotGUI | dynBiplotGUI: Full Interactive GUI for Dynamic Biplot in R |

DynClust | Denoising and clustering for dynamical image sequence (2D or 3D)+T |

dynCorr | Dynamic Correlation Package |

dynia | Fit Dynamic Intervention Model |

dynlm | Dynamic Linear Regression |

dynsim | An R implementation of dynamic simulations of autoregressive relationships |

dynsurv | Dynamic models for survival data |

e1071 | Misc Functions of the Department of Statistics (e1071), TU Wien |

eaf | Plots of the Empirical Attainment Function |

earlywarnings | Early Warning Signals Toolbox for Detecting Critical Transitions in Timeseries |

earth | Multivariate Adaptive Regression Spline Models |

easingr | Fetch and plot credit easing policy tool data |

EasyABC | EasyABC: performing efficient approximate Bayesian computation sampling schemes |

easyanova | Analysis of variance and other important complementary analyzes |

EasyHTMLReport | EasyHTMLReport |

EasyMARK | Utility functions for working with mark-recapture data |

easynls | Easy nonlinear model |

EasyStrata | Evaluation of stratified genome-wide association meta-analysis results |

eba | Elimination-by-Aspects (EBA) Models |

ebal | Entropy reweighting to create balanced samples |

EbayesThresh | Empirical Bayes Thresholding and Related Methods |

ebdbNet | Empirical Bayes Estimation of Dynamic Bayesian Networks |

EBEN | Empirical Bayesian Elastic Net |

EBMAforecast | Ensemble BMA Forecasting |

EBS | Exact Bayesian Segmentation |

ebSNP | Genotyping and SNP calling using single-sample next generation sequencing data |

Ecdat | Data sets for econometrics |

ecespa | Functions for spatial point pattern analysis |

Ecfun | Functions for Ecdat |

ecipex | Efficient calculation of fine structure isotope patterns via Fourier transforms of simplex-based elemental models |

ecodist | Dissimilarity-based functions for ecological analysis |

ecoengine | Programmatic interface to the API serving UC Berkeley's Natural History Data |

EcoHydRology | A community modeling foundation for Eco-Hydrology |

ecolMod | "A practical guide to ecological modelling - using R as a simulation platform" |

ecoreg | Ecological regression using aggregate and individual data |

ecoretriever | R Interface to the EcoData Retriever |

ecosim | Toolbox for Aquatic Ecosystem Modeling |

ecospat | Spatial ecology miscellaneous methods |

EcoTroph | EcoTroph R package |

EcoVirtual | Simulation of Ecological Models |

ecp | Nonparametric Multiple Change Point Analysis of Multivariate Data |

edcc | Economic Design of Control Charts |

edeR | Email Data Extraction Using R |

edgeRun | More Powerful Unconditional Testing of Negative Binomial Means for Digital Gene Expression Data |

EDISON | Network Reconstruction and Changepoint Detection |

editrules | R package for parsing, applying, and manipulating data cleaning rules |

EDR | Estimation of the effective dimension reduction (EDR) space |

edrGraphicalTools | Provides tools for dimension reduction methods |

eegAnalysis | Tools for analysis and classification of electroencephalography (EEG) data |

eegkit | Toolkit for electroencephalography data |

eegkitdata | Data for package eegkit |

eeptools | Convenience functions for education data |

effects | Effect Displays for Linear, Generalized Linear, Multinomial-Logit, Proportional-Odds Logit Models and Mixed-Effects Models |

EffectsRelBaseline | Test changes of a grouped response relative to baseline |

EffectStars | Visualization of Categorical Response Models |

effsize | Efficient effect size computation |

egcm | Engle-Granger cointegration models |

eggCounts | Hierarchical modelling of faecal egg counts |

egonet | Tool for ego-centric measures in Social Network Analysis |

eha | Event History Analysis |

eHOF | Extended and enhanced Hierarchical Logistic Regression models (so called Huisman-Olff-Fresco models) |

EIAdata | R Wrapper for the Energy Information Administration (EIA) API |

eigeninv | Generates (dense) matrices that have a given set of eigenvalues |

eigenmodel | Semiparametric factor and regression models for symmetric relational data |

eigenprcomp | Computes confidence intervals for principal components |

EILA | Efficient Inference of Local Ancestry |

eiPack | eiPack: Ecological Inference and Higher-Dimension Data Management |

eive | An algorithm for reducing errors-in-variable bias in simple linear regression |

eiwild | Ecological Inference with individual and aggregate data |

EL | Two-sample Empirical Likelihood |

elasticnet | Elastic-Net for Sparse Estimation and Sparse PCA |

elec | Collection of functions for statistical election audits |

elec.strat | Functions for election audits using stratified random samples |

ElemStatLearn | Data sets, functions and examples from the book: "The Elements of Statistical Learning, Data Mining, Inference, and Prediction" by Trevor Hastie, Robert Tibshirani and Jerome Friedman |

elliplot | Ellipse Summary Plot of Quantiles |

ellipse | Functions for drawing ellipses and ellipse-like confidence regions |

elliptic | elliptic functions |

elmNN | Implementation of ELM (Extreme Learning Machine ) algorithm for SLFN ( Single Hidden Layer Feedforward Neural Networks ) |

EloRating | Animal Dominance Hierarchies by Elo Rating |

elrm | Exact Logistic Regression via MCMC |

ElstonStewart | Elston-Stewart Algorithm |

ELT | ELT - A package to build Experience Life Tables |

EMA | Easy Microarray data Analysis |

embryogrowth | Tools to analyze the thermal reaction norm of embryo growth |

EMC | Evolutionary Monte Carlo (EMC) algorithm |

EMCC | Evolutionary Monte Carlo (EMC) methods for clustering |

EMCluster | EM Algorithm for Model-Based Clustering of Finite Mixture Gaussian Distribution |

EMD | Empirical Mode Decomposition and Hilbert Spectral Analysis |

emdatr | Global Disaster Losses from the EMDAT database Using R |

emdbook | Ecological models and data (book support) |

emdist | Earth Mover's Distance |

emil | Evaluation of Modeling without Information Leakage |

EMJumpDiffusion | EM-Algorithm for Jump Diffusion processes |

emma | Evolutionary model-based multiresponse approach |

EMMAgeo | End-member modelling algorithm and supporting functions for grain-size analysis |

emme2 | Read and Write to an EMME/2 databank |

EMMIXcontrasts | Contrasts in mixed effects for EMMIX model with random effects |

EMMIXskew | The EM Algorithm and Skew Mixture Distribution |

EMMIXuskew | Fitting Unrestricted Multivariate Skew t Mixture Models |

EMMREML | Fitting mixed models with known covariance structures |

emoa | Evolutionary Multiobjective Optimization Algorithms |

EMP | Expected Maximum Profit for Credit Scoring |

emplik | Empirical likelihood ratio for censored/truncated data |

emplik2 | Empirical-likelihood test (two-sample, censored data) |

EMT | Exact Multinomial Test: Goodness-of-Fit Test for Discrete Multivariate data |

emulator | Bayesian emulation of computer programs |

EMVC | Entropy Minimization over Variable Clusters (EMVC) |

ENA | Ensemble Network Aggregation |

enaR | Tools for ecological network analysis (ena) in R |

endogMNP | R Package for Fitting Multinomial Probit Models with Endogenous Selection |

endorse | R Package for Analyzing Endorsement Experiments |

energy | E-statistics (energy statistics) |

english | Translate integers into English |

EngrExpt | Data sets from "Introductory Statistics for Engineering Experimentation" |

ENMeval | Automated runs and evaluations of ecological niche models |

ENmisc | Neuwirth miscellaneous |

EnQuireR | A package dedicated to questionnaires |

enRich | An R package for the analysis of multiple ChIP-seq data |

enrichvs | Enrichment assessment of virtual screening approaches |

ensembleBMA | Probabilistic Forecasting using Ensembles and Bayesian Model Averaging |

ensembleMOS | Ensemble Model Output Statistics |

entropart | Entropy partitioning to measure diversity |

entropy | Estimation of Entropy, Mutual Information and Related Quantities |

EntropyEstimation | Estimation of Entropy and Related Quantities |

enviPat | Isotope pattern, profile and centroid calculation for mass spectrometry |

enviPick | Peak picking for high resolution mass spectrometry data |

EnviroStat | Statistical analysis of environmental space-time processes |

EnvNicheR | Environmental niche |

EnvStats | Package for Environmental Statistics, including US EPA Guidance |

epade | Easy Plots |

Epi | A package for statistical analysis in epidemiology |

epi2loc | Epistatic and penetrance models for two-locus genetic interactions |

epibasix | Elementary Epidemiological Functions for Epidemiology and Biostatistics |

epicalc | Epidemiological calculator |

EpiContactTrace | Epidemiological tool for contact tracing |

EpiDynamics | Dynamic Models in Epidemiology |

EpiEstim | EpiEstim: a package to estimate time varying reproduction numbers from epidemic curves |

EpiModel | Mathematical Modeling of Infectious Disease |

epinet | A collection of epidemic/network-related tools |

epiR | An R package for the analysis of epidemiological data |

epitools | Epidemiology Tools |

Eplot | Plotting longitudinal series |

epoc | EPoC (Endogenous Perturbation analysis of Cancer) |

epr | Easy polynomial regression |

EQL | Extended-Quasi-Likelihood-Function (EQL) |

eqs2lavaan | EQS Output Conversion to lavaan Functions |

eqtl | Tools for analyzing eQTL experiments: A complementary to Karl Broman's 'qtl' package for genome-wide analysis |

equate | Observed-Score Linking and Equating |

equateIRT | Direct, chain and average equating coefficients with standard errors using IRT methods |

equivalence | Provides tests and graphics for assessing tests of equivalence |

erboost | Nonparametric Multiple Expectile Regression via ER-Boost |

erer | Empirical Research in Economics with R |

ergm | Fit, Simulate and Diagnose Exponential-Family Models for Networks |

ergm.count | Fit, Simulate and Diagnose Exponential-Family Models for Networks with Count Edges |

ergm.graphlets | ergm.graphlets: A Package for ERG Modeling Based on Graphlet Properties |

ergmharris | Local Health Department network data set |

ergm.userterms | User-specified terms for the statnet suite of packages |

eRm | Extended Rasch Modeling |

ERP | Significance analysis of Event-Related Potentials data |

erpR | Event-related potentials (ERP) analysis, graphics and utility functions |

ES | Edge Selection |

ESG | ESG - A package for asset projection |

ESGtoolkit | Toolkit for the simulation of financial assets and interest rates models |

esotericR | esotericR articles from lemnica.com |

EstCRM | Calibrating Parameters for the Samejima's Continuous IRT Model |

estout | Estimates Output |

etable | Easy Table |

ETAS | Modeling earthquake data using Epidemic Type Aftershock Sequence model |

etasFLP | Estimation of an ETAS model. Mixed FLP (Forward Likelihood Predictive) and ML estimation of non-parametric and parametric components of the ETAS model for earthquake description |

ETC | Equivalence to control |

ETLUtils | Utility functions to execute standard ETL operations (using package ff) on large data |

etm | Empirical Transition Matrix |

eulerian | eulerian: A package to find eulerian paths from graphs |

EvalEst | Dynamic Systems Estimation - extensions |

evaluate | Parsing and evaluation tools that provide more details than the default |

Evapotranspiration | Evapotranspiration |

EvCombR | Evidence Combination in R |

evd | Functions for extreme value distributions |

evdbayes | Bayesian Analysis in Extreme Value Theory |

eVenn | eVenn: A powerful tool to compare lists and draw Venn diagrams |

eventInterval | Sequential event interval analysis |

events | Store and manipulate event data |

eventstudies | Event study and extreme event analysis |

EVER | Estimation of Variance by Efficient Replication |

evir | Extreme Values in R |

evmix | Extreme Value Mixture Modelling, Threshold Estimation and Boundary Corrected Kernel Density Estimation |

evobiR | evobiR: evolutionary biology in R |

evolvability | Calculation of evolvability parameters |

evora | Epigenetic Variable Outliers for Risk prediction Analysis |

EvoRAG | Evolutionary Rates Across Gradients |

evt0 | Mean of order p, peaks over random threshold Hill and high quantile estimates |

evtree | Evolutionary Learning of Globally Optimal Trees |

EWGoF | Goodness-of-fit tests for the Exponential and two-parameter Weibull distributions |

Exact | Unconditional Exact Test |

exact2x2 | Exact Conditional Tests and Confidence Intervals for 2x2 tables |

exactci | Exact P-values and Matching Confidence Intervals for simple Discrete Parametric Cases |

ExactCIdiff | Inductive Confidence Intervals for the difference between two proportions |

exactLoglinTest | Monte Carlo Exact Tests for Log-linear models |

exactmeta | Exact fixed effect meta analysis |

ExactPath | Exact solution paths for regularized LASSO regressions with L_1 penalty |

exactRankTests | Exact Distributions for Rank and Permutation Tests |

exams | Automatic Generation of Exams in R |

ExceedanceTools | Confidence regions for exceedance sets and contour lines |

excel.link | Convenient way to work with data in Microsoft Excel |

excursions | Functions that compute probabilistic excursion sets and contour credibility regions for latent Gaussian random processes and fields |

ExomeDepth | Calls CNV from exome sequence data |

expands | ExPANdS |

ExpDes | Experimental Designs package |

ExpDes.pt | Pacote Experimental Designs (Portuguese) |

expectreg | Expectile and Quantile Regression |

experiment | experiment: R package for designing and analyzing randomized experiments |

expert | Modeling without data using expert opinion |

expm | Matrix exponential |

expoRkit | Expokit in R |

ExPosition | Exploratory analysis with the singular value decomposition |

expoTree | Calculate density dependent likelihood of a phylogenetic tree |

expp | Spatial analysis of extra-pair paternity |

expsmooth | Data sets from "Forecasting with exponential smoothing" |

exptest | Tests for Exponentiality |

exsic | Convenience functions for botanist to create exsiccatae indices |

ExtDist | Extended Probability Distribution Functions |

extfunnel | Additional Funnel Plot Augmentations |

extlasso | Maximum penalized likelihood estimation with extended lasso penalty |

extraBinomial | Extra-binomial approach for pooled sequencing data |

extracat | Categorical Data Analysis and Visualization |

extrafont | Tools for using fonts |

extrafontdb | Package for holding the database for the extrafont package |

extraTrees | Extremely Randomized Trees (ExtraTrees) method for classification and regression |

ExtremeBounds | Extreme Bounds Analysis (EBA) |

extRemes | Extreme Value Analysis |

extremevalues | Univariate outlier detection |

extWeibQuant | Estimate the lower extreme quantile with the censored Weibull MLE and censored Weibull Mixture |

eyetracking | Eyetracking Helper Functions |

ez | Easy analysis and visualization of factorial experiments |

ezglm | selects significant non-additive interaction between two variables using fast GLM implementation |

ezsim | provide an easy to use framework to conduct simulation |

FacPad | Bayesian Sparse Factor Analysis model for the inference of pathways responsive to drug treatment |

factas | Data Mining Methods for Data Streams |

FactMixtAnalysis | Factor Mixture Analysis with covariates |

FactoClass | Combination of Factorial Methods and Cluster Analysis |

FactoMineR | Multivariate Exploratory Data Analysis and Data Mining with R |

factorplot | factorplot |

factorQR | Bayesian quantile regression factor models |

factualR | thin wrapper for the Factual.com server API |

FADA | Variable selection for supervised classification in high dimension |

FAdist | Distributions that are sometimes used in hydrology |

Fahrmeir | Data from the book "Multivariate Statistical Modelling Based on Generalized Linear Models", first edition, by Ludwig Fahrmeir and Gerhard Tutz |

fail | File Abstraction Interface Layer (FAIL) mimicking a key-value store |

FAiR | Factor Analysis in R |

falcon | Finding Allele-specific Copy Number in Next-Generation Sequencing Data |

falsy | Define truthy and falsy values |

fame | Interface for FAME time series database |

Familias | Probabilities for Pedigrees given DNA data |

FAMT | Factor Analysis for Multiple Testing (FAMT) : simultaneous tests under dependence in high-dimensional data |

fanc | Penalized likelihood factor analysis via nonconvex penalty |

fANCOVA | Nonparametric Analysis of Covariance |

fanovaGraph | Building Kriging models from FANOVA graphs |

fanplot | Visualisation of sequential probability distributions using fan charts |

FAOSTAT | A complementary package to the FAOSTAT database and the Statistical Yearbook of the Food and Agricultural Organization of the United Nations |

faoutlier | Influential case detection methods for factor analysis and SEM |

far | Modelization for Functional AutoRegressive processes |

faraway | Functions and datasets for books by Julian Faraway |

fArma | ARMA Time Series Modelling |

farsi | Translate integers into persian |

fAsianOptions | EBM and Asian Option Valuation |

fAssets | Rmetrics - Analysing and Modelling Financial Assets |

fast | Implementation of the Fourier Amplitude Sensitivity Test (FAST) |

fastclime | A fast solver for parameterized lp problems and constrained l1 minimization approach to sparse precision matrix estimation |

fastcluster | Fast hierarchical clustering routines for R and Python |

fastcox | Lasso and elastic-net penalized Cox's regression in high dimensions models using the cocktail algorithm |

fastGHQuad | Fast Rcpp implementation of Gauss-Hermite quadrature |

FastHCS | R package to compute the FastHCS outlyingness index |

fastHICA | Hierarchical Independent Component Analysis: a multi-scale sparse non-orthogonal data-driven basis |

fastICA | FastICA Algorithms to perform ICA and Projection Pursuit |

FastImputation | Learn from training data then quickly fill in missing data |

fastM | Fast Computation of Multivariate M-estimators |

fastmatch | Fast match() function |

FastPCS | R package to compute the FastPCS outlyingness index |

fastR | Data sets and utilities for Foundations and Applications of Statistics by R Pruim |

FastRCS | R package to compute the FastRCS outlyingness index |

FastRWeb | Fast Interactive Framework for Web Scripting Using R |

fastSOM | Fast Calculation of Spillover Measures |

fat2Lpoly | Two-locus Family-based Association Test with Polytomic Outcome |

FatTailsR | Power Hyperbolic Functions and Kiener Distributions |

FAwR | Functions and Datasets for "Forest Analytics with R" |

fBasics | Rmetrics - Markets and Basic Statistics |

fbati | Gene by Environment Interaction and Conditional Gene Tests for Nuclear Families |

FBFsearch | Algorithm for searching the space of Gaussian directed acyclic graphical models through moment fractional Bayes factors |

FBN | FISH Based Normalization and Copy Number inference of SNP microarray data |

fBonds | Bonds and Interest Rate Models |

fbRanks | Association Football (Soccer) Ranking via Poisson Regression |

fcd | Fused Community Detection |

fCertificates | fCertificates - Basics of Certificates and Structured Products Valuation |

fclust | Fuzzy clustering |

fCopulae | Rmetrics - Bivariate Dependence Structures with Copulae |

fcros | FCROS for detecting differentially expressed genes |

FD | Measuring functional diversity (FD) from multiple traits, and other tools for functional ecology |

fda | Functional Data Analysis |

fdakma | Functional Data Analysis: K-Mean Alignment |

fdaMixed | Functional data analysis in a mixed model framework |

fdasrvf | Elastic Functional Data Analysis |

fdatest | Interval Testing Procedure for functional data |

fda.usc | Functional Data Analysis and Utilities for Statistical Computing (fda.usc) |

FDboost | Boosting functional regression models |

fdrci | Permutation-based FDR Point and Confidence Interval Estimation |

FDRreg | False discovery rate regression |

fdrtool | Estimation of (Local) False Discovery Rates and Higher Criticism |

fds | Functional data sets |

fdth | Frequency Distribution Tables, Histograms and Poligons |

feature | Feature significance for multivariate kernel density estimation |

features | Feature Extraction for Discretely-Sampled Functional Data |

fechner | Fechnerian Scaling of Discrete Object Sets |

federalregister | Client package for the U.S. Federal Register API |

FeedbackTS | Analysis of Feedback in Time Series |

fExoticOptions | Exotic Option Valuation |

fExpressCertificates | fExpressCertificates - Structured Products Valuation for ExpressCertificates/Autocallables |

fExtremes | Rmetrics - Extreme Financial Market Data |

ff | memory-efficient storage of large data on disk and fast access functions |

ffbase | Basic statistical functions for package ff |

FFD | Freedom From Disease |

FField | Force field simulation for a set of points |

ffmanova | Fifty-fifty MANOVA |

fftw | Fast FFT and DCT based on FFTW |

fftwtools | Wrapper for fftw3: includes 1-D, univariate and multivariate, and 2-D transform |

fgac | Generalized Archimedean Copula |

FGalgorithm | Flury and Gautschi algorithms |

fGarch | Rmetrics - Autoregressive Conditional Heteroskedastic Modelling |

FGN | Fractional Gaussian Noise and power law decay time series model fitting |

fgof | Fast Goodness-of-fit Test |

FGSG | Feature grouping and selection over an undirected graph |

fgui | Function GUI |

FHtest | Tests for right and interval-censored survival data based on the Fleming-Harrington class |

FI | Provide functions for forest inventory calculations |

fICA | Classic, reloaded and adaptive FastICA algorithms |

fields | Tools for spatial data |

FieldSim | Random fields simulations |

fifer | A collection of miscellaneous functions |

filehash | Simple key-value database |

filehashSQLite | Simple key-value database using SQLite |

fImport | Rmetrics - Economic and Financial Data Import |

financial | Solving financial problems in R |

FinancialInstrument | Financial Instrument Model Infrastructure for R |

FinAsym | Classifies implicit trading activity from market quotes and computes the probability of informed trading |

FinCal | Time Value of Money, time series analysis and Computational Finance |

FindAllRoots | Find all root(s) of the equation and Find root(s) of the equation by dichotomy |

FindIt | R Package for Finding Heterogeneous Treatment Effects |

FindMinIC | Find Models with Minimum IC |

findpython | Python tools to find an acceptable python binary |

fingerprint | Functions to operate on binary fingerprint data |

finiteruinprob | Computation of the probability of ruin within a finite time horizon |

FinTS | Companion to Tsay (2005) Analysis of Financial Time Series |

FisherEM | The Fisher-EM algorithm |

fisheyeR | Fisheye and Hyperbolic-space-alike Interactive Visualization Tools in R |

FisHiCal | Iterative FISH-based Calibration of Hi-C Data |

fishmethods | Fishery Science Methods and Models in R |

fishMod | Fits Poisson-sum-of-Gammas GLMs, Tweedie GLMs, and delta log-normal mdoels |

fishmove | Prediction of Fish Movement Parameters |

fit4NM | NONMEM platform |

FitAR | Subset AR Model Fitting |

FitARMA | FitARMA: Fit ARMA or ARIMA using fast MLE algorithm |

fitdistrplus | Help to fit of a parametric distribution to non-censored or censored data |

fitDRC | Fitting Density Ratio Classes |

fit.models | fit.models |

FITSio | FITS (Flexible Image Transport System) utilities |

fitTetra | fitTetra is an R package for assigning tetraploid genotype scores |

FKF | Fast Kalman Filter |

flare | Family of Lasso Regression |

flashClust | Implementation of optimal hierarchical clustering |

flexclust | Flexible Cluster Algorithms |

flexCWM | Flexible Cluster-Weighted Modeling |

flexmix | Flexible Mixture Modeling |

FlexParamCurve | Tools to Fit Flexible Parametric Curves |

flexsurv | Flexible parametric survival and multi-state models |

FLIM | Farewell’s Linear Increments Model |

flip | Multivariate Permutation Tests |

FLLat | Fused Lasso Latent Feature Model |

flora | tools for interacting with the Brazilian Flora Checklist |

flowfield | Forecasts future values of a univariate time series |

FLR | Fuzzy Logic Rule Classifier |

flsa | Path algorithm for the general Fused Lasso Signal Approximator |

FLSSS | Fixed Size Subset Sum Solution |

FluOMatic | Estimation of background-subtracted fluorescence data |

Flury | Data Sets from Flury, 1997 |

flux | Flux rate calculation from dynamic closed chamber measurements |

fma | Data sets from "Forecasting: methods and applications" by Makridakis, Wheelwright & Hyndman (1998) |

FME | A Flexible Modelling Environment for Inverse Modelling, Sensitivity, Identifiability, Monte Carlo Analysis |

fmri | Analysis of fMRI experiments |

fmsb | Functions for medical statistics book with some demographic data |

FMStable | Finite Moment Stable Distributions |

fmt | Variance estimation of FMT method (Fully Moderated t-statistic) |

fMultivar | Rmetrics - Analysing and Modeling Multivariate Financial Return Distributions |

FNN | Fast Nearest Neighbor Search Algorithms and Applications |

fNonlinear | Nonlinear and Chaotic Time Series Modelling |

foba | greedy variable selection |

fontcm | Computer Modern font for use with extrafont package |

foodweb | visualisation and analysis of food web networks |

fOptions | Basics of Option Valuation |

forams | Foraminifera and Community Ecology Analyses |

foreach | Foreach looping construct for R |

ForeCA | ForeCA - Forecastable Component Analysis |

forecast | Forecasting functions for time series and linear models |

foreign | Read Data Stored by Minitab, S, SAS, SPSS, Stata, Systat, Weka, dBase, .. |

forensic | Statistical Methods in Forensic Genetics |

forensim | Statistical tools for the interpretation of forensic DNA mixtures |

ForImp | Imputation of missing values through a forward imputation algorithm |

ForIT | Functions from the 2nd Italian Forest Inventory (INFC) |

fork | R functions for handling multiple processes |

FormalSeries | Elementary arithemtic in formal series rings |

formatR | Format R Code Automatically |

Formula | Extended Model Formulas |

formula.tools | Utilities for working with formulas, expressions, calls and other R objects |

fortunes | R Fortunes |

forward | Forward search |

ForwardSearch | Forward Search using asymptotic theory |

fossil | Palaeoecological and Palaeogeographical Analysis Tools |

FourScores | FourScores - A game for two players |

fpc | Flexible procedures for clustering |

fpca | Restricted MLE for Functional Principal Components Analysis |

FPDC | PD-clustering and factor PD-clustering |

fpow | Computing the noncentrality parameter of the noncentral F distribution |

fpp | Data for "Forecasting: principles and practice" |

fptdApprox | Approximation of first-passage-time densities for diffusion processes |

fracdiff | Fractionally differenced ARIMA aka ARFIMA(p,d,q) models |

fractal | Fractal Time Series Modeling and Analysis |

fractaldim | Estimation of fractal dimensions |

fractalrock | Generate fractal time series with non-normal returns distribution |

FRACTION | Numeric number into fraction |

frailtyHL | Frailty Models via H-likelihood |

frailtypack | General Frailty models: shared, joint and nested frailty models with prediction |

frair | Functional response analysis in R |

Frames2 | Estimation in dual frame surveys |

FRAPO | Financial Risk Modelling and Portfolio Optimisation with R |

FRB | Fast and Robust Bootstrap |

frbs | Fuzzy Rule-based Systems for Classification and Regression Tasks |

FRCC | Fast Regularized Canonical Correlation Analysis |

freeknotsplines | Free-Knot Splines |

FreeSortR | Free Sorting data analysis |

freestats | Statistical algorithms used in common data mining course |

fRegression | Rmetrics - Regression Based Decision and Prediction |

FREQ | FREQ: Estimate population size from capture frequencies |

freqMAP | Frequency Moving Average Plots (MAP) of Multinomial Data by a Continuous Covariate |

freqparcoord | Novel Methods for Parallel Coordinates |

freqweights | Working with frequency tables |

FRESA.CAD | FeatuRE Selection Algorithms for Computer Aided Diagnosis |

FrF2 | Fractional Factorial designs with 2-level factors |

FrF2.catlg128 | Catalogues of resolution IV 128 run 2-level fractional factorials up to 33 factors that do have 5-letter words |

frm | Regression analysis of fractional responses |

frmqa | The Generalized Hyperbolic Distribution, Related Distributions and Their Applications in Finance |

frontier | Stochastic Frontier Analysis |

frontiles | Partial Frontier Efficiency Analysis |

frt | Full Randomization Test |

fscaret | Automated caret feature selection |

FSelector | Selecting attributes |

fslr | Wrapper functions for FSL (FMRIB Software Library) from Functional MRI. of the Brain (FMRIB) |

fso | Fuzzy Set Ordination |

fSRM | Social Relations Analyses with roles ("Family SRM") |

FTICRMS | Programs for Analyzing Fourier Transform-Ion Cyclotron Resonance Mass Spectrometry Data |

ftnonpar | Features and Strings for Nonparametric Regression |

fTrading | Technical Trading Analysis |

fts | R interface to tslib (a time series library in c++) |

ftsa | Functional time series analysis |

fueleconomy | EPA fuel economy data |

fugeR | FUzzy GEnetic, a machine learning algorithm to construct prediction model based on fuzzy logic |

fume | FUME package |

fun | Use R for Fun |

FunChisq | Nonparametric functional chi-square tests |

FunCluster | Functional Profiling of Microarray Expression Data |

Funclustering | A package for functional data clustering |

FuncMap | Hive Plots of R Package Function Calls |

functional | Curry, Compose, and other higher-order functions |

FunctionalNetworks | An algorithm for gene and gene set network inference |

funFEM | Clustering in the Discriminative Functional Subspace |

funHDDC | Model-based clustering in group-specific functional subspaces |

fUnitRoots | Trends and Unit Roots |

funreg | funreg (Functional Regression for Irregularly Timed Data) |

FusedPCA | Community Detection via Fused Principal Component Analysis |

futile.any | Futile library to provide some polymorphic operations |

futile.logger | A logging library for R |

futile.matrix | Random matrix generation and manipulation |

futile.options | Futile options management |

futile.paradigm | A framework for working in a functional programming paradigm in R |

fuzzyFDR | Exact calculation of fuzzy decision rules for multiple testing |

fuzzyMM | Map Matching Using Fuzzy Logic |

FuzzyNumbers | Tools to deal with fuzzy numbers |

fuzzyRankTests | Fuzzy Rank Tests and Confidence Intervals |

FuzzyStatProb | Fuzzy stationary probabilities from a sequence of observations of an unknown Markov chain |

FuzzyToolkitUoN | Type 1 Fuzzy Logic Toolkit |

fwdmsa | Forward search for Mokken scale analysis |

FWDselect | Selecting variables in regression models |

fwi.fbp | Fire Weather Index System and Fire Behaviour Prediction System Calculations |

fwsim | Fisher-Wright Population Simulation |

fxregime | Exchange Rate Regime Analysis |

G1DBN | A package performing Dynamic Bayesian Network inference |

G2Sd | Grain-size Statistics and Description of Sediment |

GA | Genetic Algorithms |

GA4Stratification | A genetic algorithm approach to determine stratum boundaries and sample sizes of each stratum in stratified sampling |

GABi | Framework for Generalized Subspace Pattern Mining |

GAD | GAD: Analysis of variance from general principles |

gains | Gains Table Package |

GAIPE | Graphical Extension with Accuracy in Parameter Estimation (GAIPE) |

galts | Genetic algorithms and C-steps based LTS (Least Trimmed Squares) estimation |

gam | Generalized Additive Models |

gamair | Data for "GAMs: An Introduction with R" |

gambin | Fit the GamBin model to species abundance distributions |

GAMBoost | Generalized linear and additive models by likelihood based boosting |

gamboostLSS | Boosting Methods for GAMLSS |

gamboostMSM | Estimating multistate models using gamboost() |

gamclass | Functions and data for a course on modern regression and classification |

games | Statistical Estimation of Game-Theoretic Models |

gamlr | Gamma Lasso Regression |

gamlss | Generalised Additive Models for Location Scale and Shape |

gamlss.add | GAMLSS Additive |

gamlss.cens | Fitting an interval response variable using gamlss.family distributions |

gamlss.data | GAMLSS Data |

gamlss.demo | Demos for GAMLSS |

gamlss.dist | Distributions to be used for GAMLSS modelling |

gamlss.mx | A GAMLSS add on package for fitting mixture distributions |

gamlss.nl | Fitting non linear parametric GAMLSS models |

gamlss.spatial | Package to fit spatial data in gamlss |

gamlss.tr | Generating and fitting truncated (gamlss.family) distributions |

gamlss.util | GAMLSS Utilities |

gamm4 | Generalized additive mixed models using mgcv and lme4 |

Gammareg | classic gamma regression: joint modeling of mean and shape parameters |

GANPA | Gene Association Network-based Pathway Analysis |

GANPAdata | The GANPA Datasets Package |

gaoptim | Genetic Algorithm optimization for real-based and permutation-based problems |

gap | Genetic analysis package |

gapmap | Functions for Drawing Gapped Cluster Heatmap with ggplot2 |

gaussDiff | Difference measures for multivariate Gaussian probability density functions |

gaussquad | Collection of functions for Gaussian quadrature |

gb | Generalize Lambda Distribution and Generalized Bootstrapping |

GB2 | Generalized Beta Distribution of the Second Kind: properties, likelihood, estimation |

gbm | Generalized Boosted Regression Models |

gbRd | Utilities for processing Rd objects and files |

gbs | Package for Generalized Birnbaum-Saunders Distributions |

GCAI.bias | Guided Correction Approach for Inherited bias (GCAI.bias) |

gCat | Graph-based two-sample tests for categorical data |

gcbd | GPU/CPU Benchmarking in Debian-based systems |

GCD | Global Charcoal Database |

gcdnet | LASSO and (adaptive) Elastic-Net penalized least squares, logistic regression, HHSVM and squared hinge loss SVM using a fast GCD algorithm |

gcExplorer | Graphical Cluster Explorer |

gclus | Clustering Graphics |

gcmr | Gaussian Copula Marginal Regression |

gconcord | Concord method for Graphical Model Selection |

gcookbook | Data for "R Graphics Cookbook" |

gdalUtils | Wrappers for the Geospatial Data Abstraction Library (GDAL) Utilities |

gdata | Various R programming tools for data manipulation |

g.data | Delayed-Data Packages |

GDAtools | A toolbox for the analysis of categorical data in social sciences, and especially Geometric Data Analysis |

GDELTtools | Download, slice, and normalize GDELT data |

gdimap | Generalized Diffusion Magnetic Resonance Imaging |

gdistance | distances and routes on geographical grids |

gdsfmt | R Interface to CoreArray Genomic Data Structure (GDS) files |

gee | Generalized Estimation Equation solver |

geeM | Fit Generalized Estimating Equations |

geepack | Generalized Estimating Equation Package |

geigen | Calculate generalized eigenvalues of a matrix pair |

geiger | Analysis of evolutionary diversification |

gems | Generalized multistate simulation model |

gemtc | GeMTC network meta-analysis |

gemtc.jar | GeMTC Java binary |

GenABEL | genome-wide SNP association analysis |

GenABEL.data | Package contains data which is used by GenABEL example and test functions |

genalg | R Based Genetic Algorithm |

genasis | Global ENvironmental ASsessment Information System (GENASIS) computational tools |

GenBinomApps | Clopper-Pearson Confidence Interval and Generalized Binomial Distribution |

gendata | Generate and modify synthetic datasets |

gender | Gender: predict gender from names using historical data |

GENEAread | Package For Reading Binary files |

GeneCycle | Identification of Periodically Expressed Genes |

GeneF | Package for Generalized F-statistics |

GeneFeST | Bayesian calculation of gene-specific FST from genomic SNP data |

Geneland | Detection of structure from multilocus genetic data |

geneListPie | Profiling a gene list into GOslim or KEGG function pie |

GeneNet | Modeling and Inferring Gene Networks |

genepi | Genetic Epidemiology Design and Inference |

GeneralizedHyperbolic | The Generalized Hyperbolic Distribution |

GeneReg | Construct time delay gene regulatory network |

geneSignatureFinder | A Gene-signatures finder tools |

genetics | Population Genetics |

GeneticTools | Collection of Genetic Data Analysis Tools |

GenKern | Functions for generating and manipulating binned kernel density estimates |

genlasso | Path algorithm for generalized lasso problems |

GENLIB | Genealogical Data Analysis |

genMOSS | Functions for the Bayesian analysis of GWAS data |

genMOSSplus | Application of MOSS algorithm to genome-wide association study (GWAS) |

genomicper | Circular Genomic Permutation using GWAS p-values of association |

genoPlotR | Plot publication-grade gene and genome maps |

GenOrd | Simulation of ordinal and discrete variables with given correlation matrix and marginal distributions |

genridge | Generalized ridge trace plots for ridge regression |

GenSA | R functions for Generalized Simulated Annealing |

gensemble | generalized ensemble methods |

genSurv | Generating multi-state survival data |

GenWin | Spline Based Window Boundaries for Genomic Analyses |

geoBayes | Analysis of geostatistical data using Bayes and empirical Bayes methods |

geoCount | Analysis and Modeling for Geostatistical Count Data |

GeoDE | A geometrical Approach to Differential expression and gene-set enrichment |

GeoGenetix | Quantification of the effect of geographic versus environmental isolation on genetic differentiation |

GeoLight | Analysis of light based geolocator data |

GEOmap | Topographic and Geologic Mapping |

geomapdata | Data for topographic and Geologic Mapping |

geometry | Mesh generation and surface tesselation |

geomorph | Geometric morphometric analyses of 2d/3d landmark data |

geonames | Interface to www.geonames.org web service |

geophys | Geophysics, Continuum Mechanics, Mogi Model |

geoR | Analysis of geostatistical data |

geoRglm | geoRglm - a package for generalised linear spatial models |

georob | Robust Geostatistical Analysis of Spatial Data |

geoscale | Geological timescale plot |

geospacom | Helper package to facilitate the generation of distance matrices used in the package spacom |

geosphere | Spherical Trigonometry |

geospt | Spatial geostatistics; some geostatistical and radial basis functions, prediction and cross validation; design of optimal spatial sampling networks based on geostatistical modelling |

geostatsp | Geostatistics using SpatialPoints and rasters |

geotools | Geo tools |

geotopbricks | geotopbricks |

GeoXp | Interactive exploratory spatial data analysis |

geozoo | Zoo of Geometric Objects |

GESTr | Gene Expression State Transformation |

getopt | C-like getopt behavior |

GetoptLong | Parse command-line arguments and variable interpolation |

GetR | GetR: Calculate Guttman error trees in R |

gettingtothebottom | Getting to the Bottom, A Package for Learning Optimization Methods |

GEVcdn | GEV conditional density estimation network |

GEVStableGarch | ARMA-GARCH/APARCH models with GEV and stable distributions |

GExMap | A visual, intuitive, easy to use software giving access to a new type of information buried into your microarray data |

gfcanalysis | Tools for working with Hansen et al. 2013 Global Forest Change dataset |

GGally | Extension to ggplot2 |

ggdendro | Tools for extracting dendrogram and tree diagram plot data for use with ggplot2 |

GGEBiplotGUI | GGEBiplotGUI: Interactive GGE Biplots in R |

ggHorizon | An implementation of Horizon Graph |

GGIR | GGIR |

gglasso | Group Lasso Penalized Learning Using A Unified BMD Algorithm |

ggm | A package for Graphical Markov Models |

ggmap | A package for spatial visualization with Google Maps and OpenStreetMap |

ggmcmc | Graphical tools for analyzing Markov Chain Monte Carlo simulations from Bayesian inference |

GGMselect | Gaussian Graphs Models selection |

ggparallel | Variations of Parallel Coordinate Plots for Categorical Data |

ggplot2 | An implementation of the Grammar of Graphics |

ggROC | package for roc curve plot with ggplot2 |

ggsubplot | Explore complex data by embedding subplots within plots |

ggtern | An extension to ggplot2, for the creation of ternary diagrams |

ggthemes | Extra themes, scales and geoms for ggplot |

ggvis | Interactive grammar of graphics |

GhcnDaily | Downloads and processes GHCN daily |

GHQp | Gauss Hermite Quadrature with pruning |

ghyp | A package on the generalized hyperbolic distribution and its special cases |

GibbsACOV | Gibbs Sampler for One-Way Mixed-Effects ANOVA and ANCOVA Models |

gibbs.met | Naive Gibbs Sampling with Metropolis Steps |

GIGrvg | Random variate generator for the GIG distribution |

GillespieSSA | Gillespie's Stochastic Simulation Algorithm (SSA) |

gIPFrm | Generalized Iterative Proportional Fitting for Relational Models |

giRaph | The giRaph package for graph representation in R |

GISTools | Some further GIS capabilities for R |

gitter | an R package for quantification of pinned microbial culture |

Giza | Constructing panels of population pyramid plots based on lattice |

glarma | Generalized Linear Autoregressive Moving Average Models |

glasso | Graphical lasso- estimation of Gaussian graphical models |

glassomix | High dimensional Mixture Graph Models selection |

glcm | Calculate textures from grey-level co-occurrence matrices (GLCMs) in R |

gld | Estimation and use of the generalised (Tukey) lambda distribution |

GLDEX | Fitting Single and Mixture of Generalised Lambda Distributions (RS and FMKL) using Various Methods |

gldist | An Asymmetry-Steepness Parameterization of the Generalized Lambda Distribution |

glinternet | Learning interactions via hierarchical group-lasso regularization |

gllm | Generalised log-linear model |

glm2 | Fitting Generalized Linear Models |

glmc | Fitting Generalized Linear Models Subject to Constraints |

glmdm | R Code for Simulation of GLMDM |

glmlep | Fit GLM with LEP-based penalized maximum likelihood |

glmmBUGS | Generalised Linear Mixed Models and Spatial Models with WinBUGS, BRugs, or OpenBUGS |

glmmGS | Gauss-Seidel Generalized Linear Mixed Model solver |

glmmLasso | Variable selection for generalized linear mixed models by L1-penalized estimation |

glmmML | Generalized linear models with clustering |

glmnet | Lasso and elastic-net regularized generalized linear models |

glmnetcr | Fit a penalized constrained continuation ratio model for predicting an ordinal response |

glmpath | L1 Regularization Path for Generalized Linear Models and Cox Proportional Hazards Model |

glmpathcr | Fit a penalized continuation ratio model for predicting an ordinal response |

glmperm | Inference in Generalized Linear Models |

glmulti | Model selection and multimodel inference made easy |

glmx | Generalized Linear Models Extended |

globalboosttest | Testing the additional predictive value of high-dimensional data |

GlobalDeviance | Global Deviance Permutation Tests |

globalGSA | Global Gene-Set Analysis for Association Studies |

GlobalOptions | Generate functions to get or set global options |

globalOptTests | Objective functions for benchmarking the performance of global optimization algorithms |

glogis | Fitting and Testing Generalized Logistic Distributions |

glpkAPI | R Interface to C API of GLPK |

GLSME | Generalized Least Squares with Measurement Error |

gmailr | Access the Gmail RESTful API from R |

gmatrix | An R Package for Harnessing GPU Power |

GMCM | Fast estimation of Gaussian Mixture Copula Models |

gMCP | Graph Based Multiple Comparison Procedures |

GMD | Generalized Minimum Distance of distributions |

Gmisc | Collection of functions for plotting relations, generating tables, and more |

gmm | Generalized Method of Moments and Generalized Empirical Likelihood |

GMMBoost | Likelihood-based Boosting for Generalized mixed models |

gmodels | Various R programming tools for model fitting |

gmp | Multiple Precision Arithmetic |

gmt | Interface between GMT Map-Making Software and R |

gMWT | Generalized Mann-Whitney Type Tests |

GNE | Computation of generalized Nash equilibria |

gnm | Generalized Nonlinear Models |

gnmf | Generalized Non-negative Matrix Factorization Based on Renyi Divergence |

gnumeric | Read data from files readable by gnumeric |

goalprog | Weighted and lexicographical goal programming and optimization |

gof | Model-diagnostics based on cumulative residuals |

GoFKernel | GoFKernel: Testing Goodness-of-fit with the Kernel Density Estimator |

goft | Tests of fit for some probability distributions |

goftest | Classical Goodness-of-Fit Tests for Univariate Distributions |

GOGANPA | GO-Functional-Network-based Gene-Set-Analysis |

gogarch | Generalized Orthogonal GARCH (GO-GARCH) models |

googlePublicData | An R library to build Google's Public Data Explorer DSPL Metadata files |

googleVis | Interface between R and Google Charts |

gooJSON | Google JSON Data Interpreter for R |

goric | Generalized Order-Restricted Information Criterion |

GOsummaries | Word cloud summaries of GO enrichment analysis |

govStatJPN | functions to get public survey data in Japan |

gpairs | gpairs: The Generalized Pairs Plot |

GPArotation | GPA Factor Rotation |

gPCA | Batch Effect Detection via Guided Principal Components Analysis |

gpclib | General Polygon Clipping Library for R |

GPCSIV | GPCSIV, Generalized Principal Component of Symbolic Interval variables |

gPdtest | Bootstrap goodness-of-fit test for the generalized Pareto distribution |

GPFDA | Apply Gaussian Process in Functional data analysis |

GPfit | Gaussian Processes Modeling |

gpk | 100 Data Sets for Statistics Education |

gplm | Generalized partial linear models (GPLM) |

gplots | Various R programming tools for plotting data |

GPLTR | Generalized Partially Linear Tree-based Regression Model |

gpmap | Analysing and plotting genotype-phenotype maps |

gpr | A Minimalistic package to apply Gaussian Process in R |

gProfileR | R interface to the g:Profiler toolkit |

GPseq | gpseq: Using the generalized Poisson distribution to model sequence read counts from high throughput sequencing experiments |

gptk | Gaussian Processes Tool-Kit |

gputools | A few GPU enabled functions |

GPvam | Maximum Likelihood Estimation of Multiple Membership Mixed Models Used in Value-Added Modeling |

grade | Binary Grading functions for R |

GRaF | Species distribution modelling using latent Gaussian random fields |

gRain | Graphical Independence Networks |

gramEvol | Grammatical Evolution For R |

GrammR | Graphical Representation and Modeling of Metagenomic Reads |

granova | Graphical Analysis of Variance |

granovaGG | Graphical Analysis of Variance Using ggplot2 |

gRapfa | Acyclic Probabilistic Finite Automata |

gRapHD | Efficient selection of undirected graphical models for high-dimensional datasets |

GrapheR | A multi-platform GUI for drawing customizable graphs in R |

graphicsQC | Quality Control for Graphics in R |

GraphPCA | GraphPCA, Graphical tools of histogram PCA |

GrassmannOptim | Grassmann Manifold Optimization |

gRbase | A package for graphical modelling in R |

gRc | Inference in Graphical Gaussian Models with Edge and Vertex Symmetries |

greport | Graphical Reporting for Clinical Trials |

Grid2Polygons | Convert Spatial Grids to Polygons |

gridBase | Integration of base and grid graphics |

gridDebug | Debugging Grid Graphics |

gridExtra | functions in Grid graphics |

gridGraphviz | Drawing Graphs with Grid |

gridSVG | Export grid graphics as SVG |

GriegSmith | Uses Grieg-Smith method on 2 dimentional spatial data |

gRim | Graphical Interaction Models |

grImport | Importing Vector Graphics |

grnn | General regression neural network |

groc | Generalized Regression on Orthogonal Components |

grofit | The package was developed to fit fit many growth curves obtained under different conditions |

grouped | Regression Analysis of Grouped and Coarse Data |

GroupSeq | A GUI-based program to compute probabilities regarding group sequential designs |

growcurves | Bayesian semi and nonparametric growth curve models that additionally include multiple membership random effects |

growfunctions | Bayesian non-parametric dependent models for time-indexed functional data |

growthmodels | Nonlinear Growth Models |

growthrate | Bayesian reconstruction of growth velocity |

grplasso | Fitting user specified models with Group Lasso penalty |

grppenalty | Concave 1-norm and 2-norm group penalty in linear and logistic regression |

grpreg | Regularization paths for regression models with grouped covariates |

grt | General Recognition Theory |

GRTo | Tools for the analysis of Gutenberg-Richter distributions of earthquake magnitudes |

GSA | Gene set analysis |

GSAgm | Gene Set Analysis using the Gamma Method |

gsalib | Utility functions for GATK |

gsarima | Two functions for Generalized SARIMA time series simulation |

gsbDesign | Group Sequential Bayes Design |

gsDesign | Group Sequential Design |

GSE | Robust Estimation of Multivariate Location and Scatter in the Presence of Missing Data |

gSeg | Graph-Based Change-Point Detection (g-Segmentation) |

gset | Group Sequential Design in Equivalence Studies |

gsg | Calculation of selection coefficients |

GSIF | Global Soil Information Facilities |

gskat | GEE_KM |

gsl | wrapper for the Gnu Scientific Library |

GSM | Gamma Shape Mixture |

gsmoothr | Smoothing tools |

gss | General Smoothing Splines |

gsscopu | Copula Density and 2-D Hazard Estimation using Smoothing Splines |

gstat | spatial and spatio-temporal geostatistical modelling, prediction and simulation |

gstudio | Analyses and functions related to the spatial analysis of genetic marker data |

gsubfn | Utilities for strings and function arguments |

gtable | Arrange grobs in tables |

gtcorr | Calculate efficiencies of group testing algorithms with correlated responses |

gte | Generalized Turnbull's estimator |

gtools | Various R programming tools |

gtx | Genetics ToolboX |

GuardianR | The Guardian API Wrapper |

Guerry | Maps, data and methods related to Guerry (1833) "Moral Statistics of France" |

GUIDE | GUI for DErivatives in R |

GUILDS | Implementation of sampling formulas for the unified neutral model of biodiversity and biogeography, with or without guild structure |

gumbel | Gumbel copula |

GUniFrac | Generalized UniFrac distances |

GUTS | GUTS: Fast Calculation of the Likelihood of a Stochastic Survival Model |

gvcm.cat | Regularized Categorical Effects/Categorical Effect Modifiers/Continuous/Smooth effects in GLMs |

gvlma | Global Validation of Linear Models Assumptions |

GWAF | Genome-wide association/interaction analysis and rare variant analysis with family data |

GWASExactHW | Exact Hardy-Weinburg testing for Genome Wide Association Studies |

GWAtoolbox | GWAS Quality Control |

gwerAM | Controlling the genome-wide type I error rate in association mapping experiments |

GWG | Calculation of probabilities for inadequate and excessive gestational weight gain |

gWidgets | gWidgets API for building toolkit-independent, interactive GUIs |

gWidgets2 | Rewrite of gWidgets API for simplified GUI construction |

gWidgets2RGtk2 | Implementation of gWidgets2 for RGtk2 package |

gWidgets2tcltk | Toolkit implementation of gWidgets2 for tcltk package |

gWidgetsRGtk2 | Toolkit implementation of gWidgets for RGtk2 |

gWidgetstcltk | Toolkit implementation of gWidgets for tcltk package |

GWmodel | Geographically weighted models |

GWRM | GWRM |

gwrr | Fits geographically weighted regression models with diagnostic tools |

GWsignif | Genome-wide significance for whole genome sequencing studies |

GxM | Maximum Likelihood Estimation for Gene-by-Measured Environment Interaction Models |

haarfisz | Software to perform Haar Fisz transforms |

HAC | Estimation, simulation and visualization of Hierarchical Archimedean Copulae (HAC) |

HadoopStreaming | Utilities for using R scripts in Hadoop streaming |

hamlet | Hierarchical Optimal Matching and Machine Learning Toolbox |

HandTill2001 | Multiple Class Area under ROC Curve |

Hankel | Univariate non-parametric two-sample test based on empirical Hankel transforms |

hapassoc | Inference of trait associations with SNP haplotypes and other attributes using the EM Algorithm |

HapEstXXR | Multi-locus stepwise regression (MSR) |

HAPim | HapIM |

Haplin | Analyzing case-parent triad and/or case-control data with SNP haplotypes |

haplo.ccs | Estimate Haplotype Relative Risks in Case-Control Data |

HaploSim | Functions to simulate haplotypes |

haplo.stats | Statistical Analysis of Haplotypes with Traits and Covariates when Linkage Phase is Ambiguous |

HAP.ROR | Recursive Organizer (ROR) |

hapsim | Haplotype Data Simulation |

HardyWeinberg | Graphical tests for Hardy-Weinberg equilibrium |

harvestr | A Parallel Simulation Framework |

hash | Full feature implementation of hash/associated arrays/dictionaries |

hashFunction | A collection of non-cryptographic hash functions |

hasseDiagram | Drawing Hasse diagram |

hawkes | Hawkes process simulation and calibration toolkit |

hazus | Damage functions from FEMA's HAZUS software for use in modeling financial losses from natural disasters |

hbim | Hill/Bliss Independence Model for Combination Vaccines |

hbmem | Hierarchical Bayesian Analysis of Recognition Memory |

hbsae | Hierarchical Bayesian Small Area Estimation |

HBSTM | Hierarchical Bayesian Space-Time models for Gaussian space-time data |

hcc | Hidden correlation check |

hcci | Interval estimation for the parameters of linear models with heteroskedasticity (Wild Bootstrap) |

hda | Heteroscedastic Discriminant Analysis |

HDclassif | High Dimensional Supervised Classification and Clustering |

hddplot | Use known groups in high-dimensional data to derive scores for plots |

hddtools | Hydrological Data Discovery Tools |

hdeco | Hierarchical DECOmposition of Entropy for Categorical Map Comparisons |

hdi | High-Dimensional Inference |

hdlm | Fitting High Dimensional Linear Models |

HDMD | Statistical Analysis Tools for High Dimension Molecular Data (HDMD) |

HDPenReg | High-Dimensional Penalized Regression |

hdrcde | Highest density regions and conditional density estimation |

HDtweedie | The Lasso for the Tweedie's Compound Poisson Model Using an IRLS-BMD Algorithm |

HEAT | Health Effects of Air Pollution and Temperature (HEAT) |

heatex | Heat exchange calculations during physical activity |

heatmap3 | A improved heatmap package |

heatmapFit | Fit statistic for binary dependent variable models |

heatmap.plus | Heatmap with more sensible behavior |

heavy | Package for robust estimation using heavy-tailed distributions |

helloJavaWorld | Hello Java World |

helsinki | Helsinki open data R tools |

heplots | Visualizing Hypothesis Tests in Multivariate Linear Models |

hergm | Hierarchical Exponential-Family Random Graph Models with Local Dependence |

hett | Heteroscedastic t-regression |

het.test | White's Test for Heteroskedasticity |

hexbin | Hexagonal Binning Routines |

hexView | Viewing Binary Files |

hflights | Flights that departed Houston in 2011 |

hgam | High-dimensional Additive Modelling |

hglasso | Learning graphical models with hubs |

hglm | Hierarchical Generalized Linear Models |

hglm.data | Data for The hglm Package |

HGNChelper | Handy functions for working with HGNC gene symbols and Affymetrix probeset identifiers |

HH | Statistical Analysis and Data Display: Heiberger and Holland |

HHG | Heller-Heller-Gorfine Tests of Independence |

hht | The Hilbert-Huang Transform: Tools and Methods |

HI | Simulation from distributions supported by nested hyperplanes |

HIBAG | HIBAG – HLA Genotype Imputation with Attribute Bagging |

HiClimR | Hierarchical Climate Regionalization: An Improved Hierarchical Clustering in R for Climate Regionalization |

HiCseg | Detection of domains in HiC data |

hiddenf | Conduct the F test for hidden additivity in two-factor experiments |

HiddenMarkov | Hidden Markov Models |

hierarchicalDS | Functions for performing hierarchical analysis of distance sampling data |

hierfstat | Estimation and tests of hierarchical F-statistics |

hierNet | A Lasso for Hierarchical Interactions |

hier.part | Hierarchical Partitioning |

HIest | Hybrid index estimation |

highfrequency | highfrequency |

highlight | Syntax highlighter |

highr | Syntax highlighting for R |

highriskzone | Determining and evaluating high-risk zones |

hillmakeR | Perform occupancy analysis |

HiLMM | Estimation of heritability in high dimensional Linear Mixed Models |

hint | Tools for hypothesis testing based on Hypergeometric Intersection distributions |

HiPLARM | High Performance Linear Algebra in R |

hiPOD | hierarchical Pooled Optimal Design |

hisemi | Hierarchical Semiparametric Regression of Test Statistics |

HistData | Data sets from the history of statistics and data visualization |

histogram | Construction of regular and irregular histograms with different options for automatic choice of bins |

HistogramTools | Utility Functions for R Histograms |

hitandrun | "Hit and Run" method for sampling uniformly from convex shapes |

hive | Hadoop InteractiVE |

HiveR | 2D and 3D Hive Plots for R |

HIV.LifeTables | HIV calibrated model life tables for countries with generalized HIV epidemics |

HK80 | Conversion Tools for HK80 Geographical Coordinate System |

HLMdiag | Diagnostic tools for hierarchical (multilevel) linear models |

hlr | Hidden Logistic Regression |

HLSM | Hierarchical latent space network model (HLSM) |

hmeasure | The H-measure and other scalar classification performance metrics |

Hmisc | Harrell Miscellaneous |

HMM | HMM - Hidden Markov Models |

HMMCont | Hidden Markov Model for Continuous Observations Processes |

hmm.discnp | Hidden Markov models with discrete non-parametric observation distributions |

hmmm | hierarchical multinomial marginal models |

HMMpa | Analysing accelerometer data using hidden Markov models |

HMP | Hypothesis Testing and Power Calculations for Comparing Metagenomic Samples from HMP |

HMPTrees | Statistical Object Oriented Data Analysis of RDP-based Taxonomic trees from Human Microbiome Data: Modeling, Visualization, and Two-Group Comparison |

HMR | Flux estimation with static chamber data |

hoardeR | hoardeR package |

holdem | Texas Holdem simulator |

Holidays | Holiday and halfday data, for use with the TimeWarp package |

homals | Gifi Methods for Optimal Scaling |

homeR | Functions useful for building physics |

homtest | Homogeneity tests for Regional Frequency Analysis |

hot.deck | Multiple Hot-deck Imputation |

HotDeckImputation | Hot Deck Imputation Methods for Missing Data |

Hotelling | Hotelling's T-squared test and variants |

hotspots | Hot spots |

howmany | A lower bound for the number of correct rejections |

HPbayes | Heligman Pollard mortality model parameter estimation using Bayesian Melding with Incremental Mixture Importance Sampling |

hpcwld | High Performance Cluster Models Based on Kiefer-Wolfowitz Recursion |

HPO.db | A set of annotation maps describing the Human Phenotype Ontology |

hpoPlot | Functions to plot graphviz style graphs of sets of HPO terms |

HPOSim | Analysis semantic similarity between HPO terms and HPO-based phenotypic similarity between genes and between diseases |

hqmisc | Miscellaneous convenience functions and dataset |

hrr | Horizontal rule for the R language |

HSAUR | A Handbook of Statistical Analyses Using R |

HSAUR2 | A Handbook of Statistical Analyses Using R (2nd Edition) |

HSAUR3 | A Handbook of Statistical Analyses Using R (3rd Edition) |

hSDM | hierarchical Bayesian species distribution models |

hsicCCA | Canonical Correlation Analysis based on Kernel Independence Measures |

hsmm | Hidden Semi Markov Models |

hsphase | Phasing, sire imputation, recombination events identification and pedigree reconstruction of half-sib families using SNP data |

HSROC | Joint meta-analysis of diagnostic test sensitivity and specificity with or without a gold standard reference test |

HSSVD | Biclustering with heterogeneous variance |

htmltools | Tools for HTML |

HTMLUtils | Facilitates automated HTML report creation |

hts | Hierarchical and grouped time series |

HTSCluster | Clustering high throughput sequencing (HTS) data |

HTSDiff | Differential analysis of RNA-seq data with Poisson mixture models |

httpRequest | Basic HTTP Request |

httpuv | HTTP and WebSocket server library |

httr | Tools for working with URLs and HTTP |

huge | High-dimensional Undirected Graph Estimation |

HUM | compute HUM value and visualize ROC curves |

humanFormat | Human-friendly formatting functions |

hwde | Models and tests for departure from Hardy-Weinberg equilibrium and independence between loci |

HWEBayes | Bayesian investigation of Hardy-Weinberg Equilibrium via estimation and testing |

HWEintrinsic | Objective Bayesian Testing for the Hardy-Weinberg Equilibrium Problem |

HW.pval | Testing Hardy-Weinberg Equilibrium for Multiallelic Genes |

hwriter | HTML Writer - Outputs R objects in HTML format |

hwriterPlus | hwriterPlus: Extending the hwriter Package |

HWxtest | Exact Tests for Hardy-Weinberg Proportions |

hybridEnsemble | Build, deploy and evaluate a Hybrid Ensemble |

hybridHclust | Hybrid hierarchical clustering |

HybridMC | Implementation of the Hybrid Monte Carlo and Multipoint Hybrid Monte Carlo sampling techniques |

hydroApps | Tools and models for hydrological applications |

hydrogeo | Groundwater data presentation and interpretation |

hydroGOF | Goodness-of-fit functions for comparison of simulated and observed hydrological time series |

HydroMe | R codes for estimating water retention and infiltration model parameters using experimental data |

hydroPSO | Particle Swarm Optimisation, with focus on Environmental Models |

hydrostats | Hydrologic indices for daily time series data |

hydroTSM | Time series management, analysis and interpolation for hydrological modelling |

HyperbolicDist | The hyperbolic distribution |

hyperdirichlet | A generalization of the Dirichlet distribution |

hypergea | Hypergeometric tests |

hypergeo | The hypergeometric function |

hyperSpec | Interface for hyperspectral data, i.e. spectra + meta info (spatial, time, concentration, ...) |

hypervolume | High-dimensional kernel density estimation and geometry operations |

HyPhy | Macroevolutionary phylogentic analysis of species trees and gene trees |

hypothesestest | Confidence Intervals and Tests of Statistical Hypotheses |

hypred | Simulation of genomic data in applied genetics |

hysteresis | Tools for Modeling Rate-Dependent Hysteretic Processes and Ellipses |

hzar | Hybrid Zone Analysis using R |

IASD | Model selection for index of asymmetry distribution |

IAT | Functions to use with data from the Implicit Association Test |

iBATCGH | Integrative Bayesian Analysis of Transcriptomic and CGH data |

ibd | INCOMPLETE BLOCK DESIGNS |

IBDhaploRtools | Functions for the Analysis of IBD Haplo output |

ibdreg | Regression Methods for IBD Linkage With Covariates |

IBDsim | Simulation of chromosomal regions shared by family members |

ibeemd | Irregular-lattice based ensemble empirical mode decomposition |

IBHM | Approximation using the IBHM method |

Iboot | Iboot: iterated bootstrap tests and confidence sets |

ibr | Iterative Bias Reduction |

IBrokers | R API to Interactive Brokers Trader Workstation |

iBUGS | An Interface to WinBUGS/OpenBUGS/JAGS by gWidgets |

iC10 | A copy number and expression-based classifier for breast tumours |

iC10TrainingData | Training datasets for iC10 package |

IC2 | Inequality and Concentration Indices and Curves |

ic50 | Standardized high-throughput evaluation of cell-based compound screens |

ica | Independent Component Analysis |

icamix | Estimation of ICA Mixture Models |

icaOcularCorrection | Independent Components Analysis (ICA) based artifact correction |

icapca | Mixed ICA/PCA |

ICC | Functions facilitating the estimation of the Intraclass Correlation Coefficient |

icd9 | Tools for Working with ICD-9 Codes, and Finding Comorbidities |

ICE | Iterated Conditional Expectation |

ICEbox | Individual Conditional Expectation Plot Toolbox |

ICEinfer | Incremental Cost-Effectiveness (ICE) Statistical Inference from Two Unbiased Samples |

icensmis | Study Design and Data Analysis in the presence of error-prone diagnostic tests and self-reported outcomes |

ICGE | Estimation of number of clusters and identification of atypical units |

ic.infer | Inequality constrained inference in linear normal situations |

iCluster | Integrative clustering of multiple genomic data types |

icomp | ICOMP criterion |

ICS | Tools for Exploring Multivariate Data via ICS/ICA |

ICSNP | Tools for Multivariate Nonparametrics |

ICsurv | A package for semiparametric regression analysis of interval-censored data |

idbg | R debugger |

identity | Jacquard Condensed Coefficients of Identity |

IDPmisc | Utilities of Institute of Data Analyses and Process Design (www.idp.zhaw.ch) |

IDPSurvival | Imprecise Dirichlet Process for Survival Analysis |

idr | Irreproducible discovery rate |

iDynoR | R Analysis package for iDynoMiCS Simulation Results |

ieeeround | Functions to set and get the IEEE rounding mode |

ifa | Independent Factor Analysis |

iFad | An integrative factor analysis model for drug-pathway association inference |

ifs | Iterated Function Systems |

ifultools | Insightful Research Tools |

iGasso | Genetic association tests and utilities |

IgorR | Read binary files saved by Igor Pro (including Neuromatic data) |

igraph | Network analysis and visualization |

igraphdata | A collection of network data sets for the igraph package |

igraphtosonia | Convert iGraph graps to SoNIA .son files |

iki.dataclim | Consistency, Homogeneity and Summary Statistics of Climatological Data |

IM | Orthogonal Moment Analysis |

Imap | Interactive Mapping |

imguR | Imgur API Client Package for R |

IMIS | Increamental Mixture Importance Sampling |

ImpactIV | Identifying Causal Effect for Multi-Component Intervention Using Instrumental Variable Method |

imprProbEst | Minimum distance estimation in an imprecise probability model |

imputeLCMD | A collection of methods for left-censored missing data imputation |

imputeMDR | The Multifactor Dimensionality Reduction (MDR) Analysis for Incomplete Data |

imputeR | A General Imputation Framework in R |

imputeYn | Imputing the last largest censored observation/observations under weighted least squares |

in2extRemes | Into the extRemes Package |

inarmix | Mixture models for longitudinal count data |

incReg | Incremental Multivariate Regression |

IndependenceTests | Nonparametric tests of independence between random vectors |

indicspecies | Studying the statistical relationship between species and groups of sites |

ineq | Measuring Inequality, Concentration, and Poverty |

InfDim | Infine-dimensional model (IDM) to analyse phenotypic variation in growth trajectories |

inference | Functions to extract inferential values of a fitted model object |

InferenceSMR | Inference about the standardized mortality ratio when evaluating the effect of a screening program on survival |

inflection | Finds the inflection point of a curve |

influence.ME | Tools for detecting influential data in mixed effects models |

influence.SEM | Case Influence in Structural Equation Models |

infoDecompuTE | Information Decomposition of Two-phase Experiments |

informR | R Tools for Creating Sequence Statistics |

infotheo | Information-Theoretic Measures |

infutil | Information Utility |

INLABMA | Bayesian Model Averaging with INLA |

inline | Inline C, C++, Fortran function calls from R |

inlinedocs | Convert inline comments to documentation |

InPosition | Inference Tests for ExPosition |

insideRODE | insideRODE includes buildin functions with deSolve solver and C/FORTRAN interfaces to nlme, together with compiled codes |

insol | Solar Radiation |

installr | Using R to install stuff (such as: R, Rtools, RStudio, git, and more!) |

insuranceData | A Collection of Insurance Datasets Useful in Risk Classification in Non-life Insurance |

intamap | procedures for automated interpolation |

intamapInteractive | procedures for automated interpolation - methods only to be used interactively, not included in intamap package |

intcox | Iterated Convex Minorant Algorithm for interval censored event data |

integrOmics | end of integrOmics package |

Interact | Tests for marginal interactions in a 2 class response model |

InteractiveIGraph | interactive network analysis and visualization |

interAdapt | interAdapt |

intergraph | Coercion routines for network data objects in R |

Interpol | Interpolation of amino acid sequences |

Interpol.T | Hourly interpolation of multiple temperature daily series |

InterVA4 | Replicate and analyse InterVA4 |

interval | Weighted Logrank Tests and NPMLE for interval censored data |

intervals | Tools for working with points and intervals |

interventionalDBN | Interventional Inference for Dynamic Bayesian Networks |

IntLik | Numerical Integration for Integrated Likelihood |

intpoint | linear programming solver by the interior point method and graphically (two dimensions) |

inTrees | Interpret Tree Ensembles |

intReg | Interval Regression |

intRegGOF | Integrated Regression Goodness of Fit |

introgress | methods for analyzing introgression between divergent lineages |

intsvy | International Assessment Data Manager |

InventorymodelPackage | Inventorymodel |

investr | Inverse Estimation/Calibration Functions |

invGauss | Threshold regression that fits the (randomized drift) inverse Gaussian distribution to survival data |

io | A unified framework for input-output operations in R |

iosmooth | Functions for smoothing with infinite order flat-top kernels |

ipdmeta | Tools for subgroup analyses with multiple trial data using aggregate statistics |

ipdw | ipdw: Interpolation by Inverse Path Distance Weighting |

ipfp | Fast implementation of the iterative proportional fitting procedure in C |

iplots | iPlots - interactive graphics for R |

IPMpack | Builds and analyses Integral Projection Models (IPMs) |

ipred | Improved Predictors |

IPSUR | Introduction to Probability and Statistics Using R |

IQCC | Improved Quality Control Charts |

iqLearn | Interactive Q-learning |

irace | Iterated Racing Procedures |

iRefR | iRefIndex Manager |

iRegression | Regression methods for interval-valued variables |

iRepro | Reproducibility for Interval-Censored Data |

irlba | Fast partial SVD by implicitly-restarted Lanczos bidiagonalization |

irr | Various Coefficients of Interrater Reliability and Agreement |

irtoys | Simple interface to the estimation and plotting of IRT models |

irtProb | Utilities and Probability Distributions Related to Multidimensional Person Item Response Models |

irtrees | Estimation of Tree-Based Item Response Models |

isa2 | The Iterative Signature Algorithm |

ISBF | Iterative Selection of Blocks of Features - ISBF |

iScreen | image-based High-Throughput RNAi Screening Analysis Tool |

isdals | Provides datasets for Introduction to Statistical Data Analysis for the Life Sciences |

ISDA.R | interval symbolic data analysis for R |

IsingFit | Fitting Ising models using the eLasso method |

isingLenzMC | Monte Carlo for classical Ising Model |

IsingSampler | Sampling methods and distribution functions for the Ising model |

ISLR | Data for An Introduction to Statistical Learning with Applications in R |

ismev | An Introduction to Statistical Modeling of Extreme Values |

Iso | Functions to perform isotonic regression |

IsoCI | Confidence intervals for current status data based on transformations and bootstrap |

isocir | Isotonic Inference for Circular data |

ISOcodes | Selected ISO codes |

IsoGene | Testing for monotonic relationship between gene expression and doses in a microarray experiment |

isopam | Isopam (Clustering) |

isopat | Calculation of isotopic pattern for a given molecular formula |

isotone | Active set and generalized PAVA for isotone optimization |

isotonic.pen | Penalized Isotonic Regression in one and two dimensions |

IsotopeR | Stable isotope analysis |

ISOweek | Week of the year and weekday according to ISO 8601 |

isva | Independent Surrogate Variable Analysis |

ISwR | Introductory Statistics with R |

iteRates | Parametric rate comparison |

iterators | Iterator construct for R |

iterLap | Approximate probability densities by iterated Laplace Approximations |

iterpc | Efficient iterator for permutations and combinations |

itertools | Iterator Tools |

itertools2 | itertools2: Functions creating iterators for efficient looping |

itree | Tools for classification and regression trees, with an emphasis on interpretability |

its | Irregular Time Series |

itsmr | Time series analysis package for students |

IUPS | Incorporating Uncertainties in Propensity Scores |

ivbma | Bayesian Instrumental Variable Estimation and Model Determination via Conditional Bayes Factors |

ivfixed | Instrumental fixed effect panel data model |

ivivc | A data analysis tool for in vitro-in vivo correlation (IVIVC) |

ivlewbel | Uses heteroscedasticity to estimate mismeasured and endogenous regressor models |

ivpack | Instrumental Variable Estimation |

ivprobit | Instrumental variables probit model |

iWeigReg | Improved methods for causal inference and missing data problems |

jaatha | A Fast Parameter Estimation Method for Evolutionary Biology |

jackknifeKME | Jackknife estimates of Kaplan-Meier estimators or integrals |

jackstraw | Non-parametric Jackstraw for Principal Component Analysis |

JADE | JADE and other BSS methods as well as some BSS performance criteria |

JAGUAR | Joint Analysis of Genotype and Group-specific Variability Using a Novel Score Test Approach to Map eQTL |

JASPAR | R modules for JASPAR databases: a collection of transcription factor DNA-binding preferences, modeled as matrices |

JavaGD | Java Graphics Device |

JBTools | JBs tools and helper functions |

JGL | Performs the Joint Graphical Lasso for sparse inverse covariance estimation on multiple classes |

JGR | JGR - Java GUI for R |

JM | Joint Modeling of Longitudinal and Survival Data |

JMbayes | Joint Modeling of Longitudinal and Time-to-Event Data under a Bayesian Approach |

Jmisc | Julian Miscellaneous Function |

Johnson | Johnson Transformation |

JohnsonDistribution | Johnson Distribution |

joineR | Joint modelling of repeated measurements and time-to-event data |

jointDiag | Joint Approximate Diagonalization of a set of square matrices |

jointPm | Risk estimation using the joint probability method |

JointRegBC | Joint Modelling of Mixed Correlated Binary and Continuous Responses : A Latent Variable Approach |

JOP | Joint Optimization Plot |

JoSAE | Functions for some unit-level small area estimators and their variances |

jpeg | Read and write JPEG images |

JPSurv | Methods for population-based cancer survival analysis |

jSonarR | jSonar Analytics Platform API for R |

jsonlite | A Robust, High Performance JSON Parser and Generator for R |

jtrans | Johnson transformation for normality |

JudgeIt | JudgeIt: A Program for Evaluating Electoral Systems and Redistricting Plans |

Julia | Fractal Image Data Generator |

jvmr | Integration of R, Java, and Scala |

KANT | Package to identify and sort genes overexpressed |

KappaGUI | GUI for Cohen's and Fleiss' Kappa |

kappalab | Non-additive measure and integral manipulation functions |

kappaSize | Sample Size Estimation Functions for Studies of Interobserver Agreement |

KappaV | Calculates "vectorial Kappa", an index of congruence between patchy mosaics |

kaps | K-Adaptive Partitioning for Survival data |

KATforDCEMRI | Kinetic analysis and visualization of DCE-MRI data |

kcirt | k-Cube Thurstonian IRT Models |

kdetrees | Nonparametric method for identifying discordant phylogenetic trees |

kedd | Kernel Estimator and Bandwidth Selection for Density and its Derivatives |

kelvin | Calculate solutions to the Kelvin differential equation using Bessel functions |

Kendall | Kendall rank correlation and Mann-Kendall trend test |

kequate | The kernel method of test equating |

kerdiest | Nonparametric kernel estimation of the distribution function. Bandwidth selection and estimation of related functions |

kernelFactory | Kernel Factory: An ensemble of kernel Machines |

kernlab | Kernel-based Machine Learning Lab |

KernSmooth | Functions for kernel smoothing for Wand & Jones (1995) |

KernSmoothIRT | Nonparametric Item Response Theory |

KFAS | Kalman Filter and Smoother for Exponential Family State Space Models |

KFKSDS | Kalman Filter, Smoother and Disturbance Smoother |

kimisc | Kirill's miscellaneous functions |

kin.cohort | Analysis of kin-cohort studies |

kinfit | Routines for fitting kinetic models to chemical degradation data |

kinship2 | Pedigree functions |

kintone | kintone REST client package for R |

kitagawa | Spectral response of water wells to harmonic strain and pressure |

kknn | Weighted k-Nearest Neighbors |

klaR | Classification and visualization |

klausuR | Multiple Choice Test Evaluation |

klin | Linear equations with Kronecker structure |

kmc | Kaplan - Meier estimator with constraints for right censored data – a recursive computational algorithm |

km.ci | Confidence intervals for the Kaplan-Meier estimator |

kmconfband | Kaplan-Meier Simultaneous Confidence Band for the Survivor Function |

kmi | Kaplan-Meier multiple imputation for the analysis of cumulative incidence functions in the competing risks setting |

Kmisc | Kevin Miscellaneous |

kml | K-means for Longitudinal data |

kml3d | K-means for joint Longitudinal data |

kmlcov | Clustering longitudinal data using the likelihood as a metric of distance |

KMsurv | Data sets from Klein and Moeschberger (1997), Survival Analysis |

knitcitations | Citations for knitr markdown files |

knitr | A general-purpose package for dynamic report generation in R |

knitrBootstrap | Knitr Bootstrap framework |

knnGarden | Multi-distance based k-Nearest Neighbors |

knnIndep | Independence tests and benchmarks |

kobe | Tools for the provision of scientific fisheries management advice |

kofnGA | A genetic algorithm for fixed-size subset selection |

kohonen | Supervised and unsupervised self-organising maps |

kolmim | An improved evaluation of Kolmogorov's distribution |

KoNLP | Korean NLP Package |

koRpus | An R Package for Text Analysis |

Kpart | Spline Fitting |

kriging | Ordinary Kriging |

KrigInv | Kriging-based Inversion for Deterministic and Noisy Computer Experiments |

KRLS | Kernel-based Regularized Least squares (KRLS) |

krm | Kernel-based Regression Models |

ks | Kernel smoothing |

kSamples | K-Sample Rank Tests and their Combinations |

kselection | Selection of k in k-means clustering |

KsPlot | Check the power of seveal statistical models |

kst | Knowledge Space Theory |

ktsolve | Configurable function for solving families of nonlinear equations |

ktspair | k-Top Scoring Pairs for Microarray Classification |

kulife | Datasets and functions from the (now non-existing) Faculty of Life Sciences, University of Copenhagen |

kyotil | Utility Functions by Youyi & Krisz |

kza | Kolmogorov-Zurbenko Adaptive Filters |

kzft | Kolmogorov-Zurbenko Fourier Transform and Applications |

kzs | Kolmogorov-Zurbenko Spatial Smoothing and Applications |

l2boost | l2boost - Friedman's boosting algorithm for regularized linear regression |

labdsv | Ordination and Multivariate Analysis for Ecology |

labeledLoop | Labeled Loop |

labeling | Axis Labeling |

label.switching | Relabelling MCMC outputs of mixture models |

labeltodendro | Convert labels or tables to a dendrogram |

labstatR | Libreria del Laboratorio di Statistica con R |

laeken | Estimation of indicators on social exclusion and poverty |

laercio | Duncan test, Tukey test and Scott-Knott test |

LaF | Fast access to large ASCII files |

laGP | Local Approximate Gaussian Process Regression |

Lahman | Sean Lahman's Baseball Database |

LakeMetabolizer | Tools for the analysis of ecosystem metabolism |

lakemorpho | Lake morphometry in R |

Lambda4 | Collection of Internal Consistency Reliability Coefficients |

lambda.r | Modeling Data with Functional Programming |

lambda.tools | Tools for modeling data with functional programming |

LambertW | Analyze and Gaussianize skewed, heavy-tailed data |

landsat | Radiometric and topographic correction of satellite imagery |

languageR | Data sets and functions with "Analyzing Linguistic Data: A practical introduction to statistics" |

lar | History of labour relations package |

LARF | Local Average Response Functions for Instrumental Variable Estimation of Treatment Effects |

LargeRegression | Large Regressions |

lars | Least Angle Regression, Lasso and Forward Stagewise |

laser | Likelihood Analysis of Speciation/Extinction Rates from Phylogenies |

lasso2 | L1 constrained estimation aka ‘lasso’ |

lassoscore | high-dimensional inference with the penalized score test |

lassoshooting | L1 regularized regression (Lasso) solver using the Cyclic Coordinate Descent algorithm aka Lasso Shooting |

latdiag | Draws diagrams useful for checking latent scales |

latentnet | Latent position and cluster models for statistical networks |

Laterality | Functions to calculate common laterality statistics in primatology |

lattice | Lattice Graphics |

latticeDensity | Density estimation and nonparametric regression on irregular regions |

latticeExtra | Extra Graphical Utilities Based on Lattice |

LatticeKrig | Multiresolution Kriging based on Markov random fields |

lava | Linear Latent Variable Models |

lavaan | Latent Variable Analysis |

lavaan.survey | Complex survey Structural Equation Modeling (SEM) |

lava.tobit | LVM with censored and binary outcomes |

lawstat | An R package for biostatistics, public policy, and law |

lazy | Lazy Learning for Local Regression |

lazyData | A LazyData Facility |

lazyWeave | LaTeX Wrappers for R Users |

lbfgs | Limited-memory BFGS Optimization |

lbiassurv | Length-biased correction to survival curve estimation |

LCA | Localised Co-Dependency Analysis |

LCAextend | Latent Class Analysis (LCA) with familial dependence in extended pedigrees |

lcd | Learn Chain graphs via Decomposition |

lcda | Latent Class Discriminant Analysis |

LCFdata | Data sets for package “LMERConvenienceFunctions” |

lcmm | Estimation of Extended Mixed Models Using Latent Classes and Latent Processes |

lctools | Local Correlation, Spatial Inequalities and other tools |

lda | Collapsed Gibbs sampling methods for topic models |

ldbounds | Lan-DeMets Method for Group Sequential Boundaries |

LDcorSV | Linkage disequilibrium corrected by the structure and the relatedness |

LDExplorer | Efficient Whole-Genome LD Based Haplotpe Block Recognition |

LDheatmap | Graphical display of pairwise linkage disequilibria between SNPs |

ldlasso | LD LASSO Regression for SNP Association Study |

LDOD | Finding Locally D-optimal optimal designs for some nonlinear and generalized linear models |

ldr | Methods for likelihood-based dimension reduction in regression |

LDRTools | Tools for Linear Dimension Reduction |

LDtests | Exact tests for Linkage Disequilibrium and Hardy-Weinberg Equilibrium |

LeafAngle | Fits, plots, and summarizes leaf angle distributions |

leafletR | Interactive web-maps based on the Leaflet JavaScript library |

LEAPFrOG | Likelihood Estimation of Admixture in Parents From Offspring Genotypes |

leapp | latent effect adjustment after primary projection |

leaps | regression subset selection |

LearnBayes | Functions for Learning Bayesian Inference |

learningr | Data and functions to accompany the book "Learning R" |

lefse | Phylogenetic and Functional Analyses for Ecology |

leiv | Bivariate linear errors-in-variables estimation |

LeLogicielR | Functions and datasets to accompany the book "Le logiciel R: Maitriser le langage, Effectuer des analyses statistiques" (french) |

lessR | Less Code, More Results |

lestat | A package for LEarning STATistics |

letsR | Tools for data handling and analysis in macroecology |

lfe | Linear Group Fixed Effects |

lfstat | Calculation of Low Flow Statistics for daily stream flow data |

lga | Tools for linear grouping analysis (LGA) |

lgarch | Simulation and estimation of log-GARCH models |

lgcp | Log-Gaussian Cox Process |

LGS | simulating Linkage Group Selection (LGS) |

lgtdl | A set of methods for longitudinal data objects |

lhs | Latin Hypercube Samples |

libamtrack | Computational routines for proton and ion radiotherapy |

LiblineaR | Linear Predictive Models Based On The liblinear C/C++ Library |

LICORS | Light Cone Reconstruction of States - Predictive State Estimation From Spatio-Temporal Data |

LICurvature | Sensitivity Analysis for Case Weight in Normal Linear Regression |

lifecontingencies | A package to perform actuarial mathematics for life contingencies insurances |

LifeTables | A package to implement HMD model life table system |

LIHNPSD | Poisson Subordinated Distribution |

likelihood | Methods for maximum likelihood estimation |

likeLTD | Tools to determine DNA profile evidence |

LIM | Linear Inverse Model examples and solution methods |

limitplot | Jitter/CI Plot with Ordered Points Below the Limit of Detection |

limSolve | Solving Linear Inverse Models |

LindenmayeR | Functions to Explore L-Systems (Lindenmayer Systems) |

LinearizedSVR | Linearized Support Vector Regression |

lineup | Lining up two sets of measurements |

linkcomm | Tools for Generating, Visualizing, and Analysing Link Communities in Networks |

linkim | Linkage information based genotype imputation method |

linLIR | linear Likelihood-based Imprecise Regression |

linprog | Linear Programming / Optimization |

LinRegInteractive | Interactive Interpretation of Linear Regression Models |

LINselect | Selection of linear estimators |

lint | Tools to check R code style |

liso | Fitting lasso penalised additive isotone models |

lisp | List-processing à la SRFI-1 |

lisrelToR | Import output from LISREL into R |

list | Statistical Methods for the Item Count Technique and List Experiment |

LIStest | Tests of independence based on the Longest Increasing Subsequence |

llama | Leveraging Learning to Automatically Manage Algorithms |

lle | Locally linear embedding |

lllcrc | Local Log-linear Models for Capture-Recapture |

lmbc | Linear Model Bias Correction for RNA-Seq Data |

lm.beta | Add Standardized Regression Coefficients to lm-Objects |

lm.br | Linear Model with Breakpoint |

lme4 | Linear mixed-effects models using Eigen and S4 |

lmec | Linear Mixed-Effects Models with Censored Responses |

lmeNB | Fit negative binomial mixed-effect regression model |

lmeNBBayes | Sample from the posterior of the negative binomial mixed-effect regression model. The random effect is modeled with DP mixture of beta distributions |

LMERConvenienceFunctions | A suite of functions to back-fit fixed effects and forward-fit random effects, as well as other miscellaneous functions |

lmerTest | Tests for random and fixed effects for linear mixed effect models (lmer objects of lme4 package) |

lmeSplines | Add smoothing spline modelling capability to nlme |

LMest | Fit Latent Markov models in basic versions |

lmeVarComp | Testing for a subset of variance components in linear mixed models |

lmf | Functions for estimation and inference of selection in age-structured populations |

lmm | Linear mixed models |

lmmfit | Goodness-of-fit-measures for linear mixed models with one-level-grouping |

lmmlasso | Linear mixed-effects models with Lasso |

lmmot | Multiple Ordinal Tobit (MOT) model |

lmms | Linear mixed effect model splines for modelling and analysis of time course data |

lmodel2 | Model II Regression |

lmom | L-moments |

lmomco | L-moments, Censored L-moments, Trimmed L-moments, L-comoments, and Many Distributions |

Lmoments | L-moments and quantile mixtures |

lmomRFA | Regional frequency analysis using L-moments |

lmSupport | Support for Linear Models |

lmtest | Testing Linear Regression Models |

loa | loa: various plots, options and add-ins for use with lattice |

localdepth | Local Depth |

localgauss | Estimating local Gaussian parameters |

localsolver | R API to LocalSolver |

locfdr | Computes local false discovery rates |

locfit | Local Regression, Likelihood and Density Estimation |

locits | Test of stationarity and localized autocovariance |

Lock5Data | Datasets for "Statistics: UnLocking the Power of Data" |

locpol | Kernel local polynomial regression |

loe | Local Ordinal Embedding |

log4r | A simple logging system for R, based on log4j |

LogConcDEAD | Log-concave Density Estimation in Arbitrary Dimensions |

logconcens | Maximum likelihood estimation of a log-concave density based on censored data |

logcondens | Estimate a Log-Concave Probability Density from iid Observations |

logcondens.mode | Compute MLE of Log-Concave Density on R with Fixed Mode, and Perform Inference for the Mode |

logcondiscr | Estimate a Log-Concave Probability Mass function from Discrete i.i.d. Observations |

logging | R logging package |

LogicForest | Logic Forest |

LOGICOIL | LOGICOIL: multi-state prediction of coiled-coil oligomeric state |

LogicReg | Logic Regression |

logistf | Firth's bias reduced logistic regression |

LogisticDx | Diagnostic tests for logistic regression models |

logitchoice | Fitting l2-regularized logit choice models via generalized gradient descent |

LogitNet | Infer network based on binary arrays using regularized logistic regression |

logitnorm | Functions for the logitnormal distribution |

loglognorm | Double log normal distribution functions |

logmult | Log-multiplicative models, including association models |

LogrankA | Logrank Test for Aggregated Survival Data |

logspline | Logspline density estimation routines |

lokern | Kernel Regression Smoothing with Local or Global Plug-in Bandwidth |

lomb | Lomb-Scargle Periodogram |

longCatEDA | Package for Plotting Categorical Longitudinal and Time-Series Data |

longitudinal | Analysis of Multiple Time Course Data |

longitudinalData | Longitudinal Data |

longmemo | Statistics for Long-Memory Processes (Jan Beran) – Data and Functions |

longpower | Sample size calculations for longitudinal data |

loop | loop decomposition of weighted directed graphs for life cycle analysis, providing flexbile network plotting methods, and analyzing food chain properties in ecology |

LoopAnalyst | A collection of tools to conduct Levins' Loop Analysis |

lordif | Logistic Regression Differential Item Functioning using IRT |

lorec | LOw Rand and sparsE Covariance matrix estimation |

LOST | Missing morphometric data simulation and estimation |

LowRankQP | Low Rank Quadratic Programming |

lpc | Lassoed principal components for testing significance of features |

LPCM | Local principal curve methods |

lpint | Local polynomial estimators of intensity function or its derivatives |

LPmerge | Merging linkage maps by linear programming |

lpmodeler | Modeler for linear programs (LP) and mixed integer linear programs (MILP) |

lpridge | Local Polynomial (Ridge) Regression |

LPS | Linear Predictor Score, for binary inference from multiple continuous variables |

lpSolve | Interface to Lp_solve v. 5.5 to solve linear/integer programs |

lpSolveAPI | R Interface for lp_solve version 5.5.2.0 |

LPStimeSeries | Learned Pattern Similarity and Representation for Time Series |

lqa | Penalized Likelihood Inference for GLMs |

lqmm | Linear Quantile Mixed Models |

lrmest | Different types of estimators to deal with multicollinearity |

LS2W | Locally stationary two-dimensional wavelet process estimation scheme |

LS2Wstat | A Multiscale Test of Spatial Stationarity for LS2W processes |

lsa | Latent Semantic Analysis |

LSAfun | Applied Latent Semantic Analysis (LSA) functions |

LSC | Local Statistical Complexity - Automatic Pattern Discovery in Spatio-Temporal Data |

LSD | Lots of Superior Depictions |

lsdv | Least square dummy variable regression |

lsgl | Linear sparse group lasso |

lshorth | The Length of the Shorth |

lsmeans | Least-Squares Means |

LSMonteCarlo | American options pricing with Least Squares Monte Carlo method |

lspls | LS-PLS Models |

lsr | Companion package to "Learning Statistics with R" |

lss | the accelerated failure time model to right censored data based on least-squares principle |

ltbayes | Simulation-Based Bayesian Inference for Latent Traits of Item Response Models |

ltm | Latent Trait Models under IRT |

ltmle | Longitudinal Targeted Maximum Likelihood Estimation |

LTPDvar | LTPD and AOQL plans for acceptance sampling inspection by variables |

LTR | Perform LTR analysis on microarray data |

ltsa | Linear time series analysis |

ltsbase | Ridge and Liu Estimates based on LTS (Least Trimmed Squares) Method |

ltsk | local time space kriging |

lubridate | Make dealing with dates a little easier |

luca | Likelihood inference from case-control data Under Covariate Assumptions (LUCA) |

Luminescence | Package for Luminescence Dating data analysis |

lunar | Lunar Phase & Distance, Seasons and Other Environmental Factors |

lvm4net | Latent Variable Models for Networks |

LVMMCOR | A Latent Variable Model for Mixed Continuous and Ordinal Responses |

LVQTools | Learning Vector Quantization Tools |

lxb | Fast LXB file reader |

lymphclon | Accurate Estimation of Clonal Coincidences and Abundances from Biological Replicates |

M3 | Reading M3 files |

m4fe | Models for Financial Economics |

MAc | Meta-Analysis with Correlations |

MAclinical | Class prediction based on microarray data and clinical parameters |

MAd | Meta-Analysis with Mean Differences |

mada | Meta-Analysis of Diagnostic Accuracy (mada) |

MADAM | This package provides some basic methods for meta-analysis |

madsim | A Flexible Microarray Data Simulation Model |

Maeswrap | Wrapper functions for MAESTRA/MAESPA |

magic | create and investigate magic squares |

magicaxis | Pretty scientific plotting with minor-tick and log minor-tick support |

magma | Matrix Algebra on GPU and Multicore Architectures |

magrittr | magrittr - a forward-pipe operator for R |

Sending Email Notifications from R | |

mailR | A utility to send emails from R |

MAINT.Data | Model and Analize Interval Data |

makeProject | Creates an empty package framework for the LCFD format |

malaria.em | EM Estimation of Malaria Haplotype Probabilities from Multiply Infected Human Blood Samples |

MALDIquant | Quantitative Analysis of Mass Spectrometry Data |

MALDIquantForeign | Import/Export routines for MALDIquant |

mallet | A wrapper around the Java machine learning tool MALLET |

MAMA | Meta-Analysis of MicroArray |

MAMS | Designing Multi-Arm Multi-Stage Studies |

MAMSE | Calculation of Minimum Averaged Mean Squared Error (MAMSE) weights |

ManyTests | Multiple testing procedures of Cox (2011) and Wang and Cox (2007) |

Map2NCBI | Mapping Markers to the Nearest Genomic Feature |

MAPA | Multiple Aggregation Prediction Algorithm |

mapdata | Extra Map Databases |

MapGAM | Mapping Smoothed Effect Estimates from Individual-Level Data |

MAPLES | Smoothed age profile estimation |

mapmisc | Utilities for producing maps |

mapplots | Data visualisation on maps |

mapproj | Map Projections |

maps | Draw Geographical Maps |

mapStats | Geographic display of survey data statistics |

maptools | Tools for reading and handling spatial objects |

maptpx | MAP estimation of topic models |

maptree | Mapping, pruning, and graphing tree models |

mAr | Multivariate AutoRegressive analysis |

MAR1 | Multivariate Autoregressive Modeling for Analysis of Community Time-Series Data |

mar1s | Multiplicative AR(1) with Seasonal Processes |

marelac | Tools for Aquatic Sciences |

marg | Approximate marginal inference for regression-scale models |

margie | Log Marginal Likelihood of Gaussian Mixture |

marginalmodelplots | Marginal Mean Model Plots |

markdown | Markdown rendering for R |

marked | R Code for mark-recapture analysis |

maRketSim | Market simulator for R |

markovchain | A package to handle and analyse discrete Markov chains |

MarkowitzR | Statistical significance of the Markowitz portfolio |

marmap | Import, plot and analyze bathymetric and topographic data |

marqLevAlg | An algorithm for least-squares curve fitting |

MARSS | Multivariate Autoregressive State-Space Modeling |

maSAE | Mandallaz' model-assisted small area estimators |

MASS | Support Functions and Datasets for Venables and Ripley's MASS |

MASSTIMATE | Body Mass Estimation Equations for Vertebrates |

MasterBayes | ML and MCMC Methods for Pedigree Reconstruction and Analysis |

MAT | Multidimensional Adaptive Testing |

Matching | Multivariate and Propensity Score Matching with Balance Optimization |

MatchingFrontier | Computation of the Balance - Sample Size Frontier in Matching Methods for Causal Inference |

MatchIt | MatchIt: Nonparametric Preprocessing for Parametric Casual Inference |

mathgraph | Directed and undirected graphs |

matie | Measuring Association and Testing Independence Efficiently |

matlab | MATLAB emulation package |

matpow | matrix powers |

Matrix | Sparse and Dense Matrix Classes and Methods |

matrixcalc | Collection of functions for matrix calculations |

MatrixEQTL | MatrixEQTL: Ultra fast eQTL analysis via large matrix operations |

MatrixModels | Modelling with Sparse And Dense Matrices |

matrixpls | Matrix-based Partial Least Squares estimation |

matrixStats | Methods that apply to rows and columns of a matrix |

MATTOOLS | Modern Calibration Functions for the Modern Analog Technique (MAT) |

MAVTgsa | Three methods to identify differentially expressed gene sets, ordinary least square test, Multivariate Analysis Of Variance test with n contrasts and Random forest |

MaXact | Exact max-type Cochran-Armitage trend test(CATT) |

maxent | Low-memory Multinomial Logistic Regression with Support for Text Classification |

maxLik | Maximum Likelihood Estimation |

maxlike | Model species distributions by estimating the probability of occurrence using presence-only data |

maxstat | Maximally Selected Rank Statistics |

MBA | Multilevel B-spline Approximation |

mbbefd | MBBEFD distribution and exposure curve |

MBCluster.Seq | Model-Based Clustering for RNA-seq Data |

MBESS | MBESS |

mbest | Moment-Based Estimation for Hierarchical Models |

MBI | (M)ultiple-site (B)iodiversity (I)ndices Calculator |

mblm | Median-Based Linear Models |

MBmca | Nucleic Acid Melting Curve Analysis on Microbead Surfaces with R |

mbmdr | Model Based Multifactor Dimensionality Reduction |

mboost | Model-Based Boosting |

mc2d | Tools for Two-Dimensional Monte-Carlo Simulations |

MC2toPath | Translates information from netcdf files with MC2 output into inter-PVT transitions |

MCAPS | MCAPS data and results |

MCAvariants | Multiple Correspondence Analysis Variants |

mcbiopi | Matrix Computation Based Identification Of Prime Implicants |

mcc | Moment Corrected Correlation |

mcclust | Process an MCMC Sample of Clusterings |

MCDA | MCDA |

mcga | Machine coded genetic algorithms for real-valued optimization problems |

mcgibbsit | Warnes and Raftery's MCGibbsit MCMC diagnostic |

mcGlobaloptim | Global optimization using Monte Carlo and Quasi Monte Carlo simulation |

mcheatmaps | Multiple matrices heatmap visualization |

MChtest | Monte Carlo hypothesis tests with Sequential Stopping |

mcIRT | IRT models for multiple choice items (mcIRT) |

mcll | Monte Carlo Local Likelihood Estimation |

mclogit | Mixed Conditional Logit |

mclust | Normal Mixture Modeling for Model-Based Clustering, Classification, and Density Estimation |

mcmc | Markov Chain Monte Carlo |

MCMCglmm | MCMC Generalised Linear Mixed Models |

MCMChybridGP | Hybrid Markov chain Monte Carlo using Gaussian Processes |

MCMC.OTU | Bayesian analysis of multivariate counts data |

MCMCpack | Markov chain Monte Carlo (MCMC) Package |

mcmcplots | Create Plots from MCMC Output |

MCMC.qpcr | Bayesian analysis of qRT-PCR data |

mcmcse | Monte Carlo Standard Errors for MCMC |

mco | Multiple Criteria Optimization Algorithms and Related Functions |

Mcomp | Data from the M-competitions |

MConjoint | Conjoint Analysis through Averaging of Multiple Analyses |

MCPAN | Multiple comparisons using normal approximation |

McParre | Run a Regenerative Markov chain in Parallel on a Cluster |

MCPerm | A Monte Carlo permutation method for multiple test correlation |

MCPMod | Design and Analysis of Dose-Finding Studies (see also DoseFinding package) |

mcprofile | Multiple Contrast Profiles |

mcr | Method Comparison Regression |

mcsm | Functions for Monte Carlo Methods with R |

McSpatial | Nonparametric spatial data analysis |

mda | Mixture and flexible discriminant analysis |

mdatools | Multivariate data analysis for chemometrics |

mded | Measuring the difference between two empirical distributions |

MDM | Multinomial Diversity Model |

MDPtoolbox | Markov Decision Processes toolbox |

MDR | Detect gene-gene interactions using multifactor dimensionality reduction |

mdsdt | Functions for Analysis of Data with General Recognition Theory |

MDSGUI | A GUI for interactive MDS in R |

meboot | Maximum Entropy Bootstrap for Time Series |

mederrRank | Bayesian Methods for Identifying the Most Harmful Medication Errors |

mediation | Causal Mediation Analysis |

MedOr | Median Ordering Statistical R package |

medSTC | A max-margin supervised Sparse Topical Coding Model |

MEET | MEET: Motif Elements Estimation Toolkit |

mefa | Multivariate Data Handling in Ecology and Biogeography |

mefa4 | Multivariate Data Handling with S4 Classes and Sparse Matrices |

meifly | Interactive model exploration using GGobi |

mem | Moving Epidemic Method R Package |

memgene | Spatial pattern detection in genetic distance data using Moran's Eigenvector Maps |

memisc | Tools for Management of Survey Data, Graphics, Programming, Statistics, and Simulation |

memoise | Memoise functions |

MEMSS | Data sets from Mixed-effects Models in S |

memuse | Estimate the memory usage of dense, in-core, numeric objects |

MergeGUI | A GUI for Merging Datasets in R |

merror | Accuracy and Precision of Measurements |

MESS | Miscellaneous esoteric statistical scripts |

meta | Meta-Analysis with R |

MetABEL | Meta-analysis of genome-wide SNP association results |

MetabolAnalyze | Probabilistic latent variable models for metabolomic data |

metacom | Analysis of the 'elements of metacommunity structure' |

metacor | Meta-analysis of correlation coefficients |

MetaDE | MetaDE: Microarray meta-analysis for differentially expressed gene detection |

metafolio | Metapopulation simulations for conserving salmon through portfolio optimization |

metafor | Meta-Analysis Package for R |

metagen | Inference in Meta Analysis and Meta Regression |

metaLik | Likelihood inference in meta-analysis and meta-regression models |

metaMA | Meta-analysis for MicroArrays |

metamisc | Diagnostic and prognostic meta analysis (metamisc) |

metap | Meta-analysis of significance values |

MetaPCA | MetaPCA: Meta-analysis in the Dimension Reduction of Genomic data |

metaplus | Robust meta-analysis and meta-regression |

MetaQC | MetaQC: Objective Quality Control and Inclusion/Exclusion Criteria for Genomic Meta-Analysis |

metaRNASeq | Meta-analysis of RNA-seq data |

metasens | Advanced statistical methods to model and adjust for bias in meta-analysis |

MetaSKAT | Meta analysis for SNP-set (Sequence) Kernel Association Test |

metatest | Fit and test metaregression models |

Metatron | Meta-analysis for Classification Data and Correction to Imperfect Reference |

meteoForecast | Retrieve meteorological forecast from Meteogalicia and OpenMeteo services |

meteogRam | Tools for plotting meteograms |

MetFns | Analysis of Visual Meteor Data |

Meth27QC | Meth27QC: sample quality analysis, and sample control analysis |

MethComp | Functions for analysis of agreement in method comparison studies |

Methplot | Visualize the methylation patterns |

Metrics | Evaluation metrics for machine learning |

metRology | Support for metrological applications |

metrumrg | Pharmacometric tools for data preparation, modeling, simulation, and reporting |

mets | Analysis of Multivariate Event Times |

MetStaT | Statistical metabolomics tools |

mewAvg | A Fixed Memeory Moving Expanding Window Average |

MExPosition | Multi-table ExPosition |

MF | Mitigated Fraction |

MFDA | Model Based Functional Data Analysis |

MFHD | Multivariate Functional Halfspace Depth |

mFilter | Miscellaneous time series filters |

mfx | Marginal Effects, Odds Ratios and Incidence Rate Ratios for GLMs |

mgcv | Mixed GAM Computation Vehicle with GCV/AIC/REML smoothness estimation |

MGLM | Multivariate Response Generalized Linear Models |

mgpd | mgpd: Functions for multivariate generalized Pareto distribution (MGPD of Type II) |

mgraph | Graphing map attributes and non-map variables in R |

MGRASTer | API Client for the MG-RAST Server of the US DOE KBase |

MGSDA | Multi-Group Sparse Discriminant Analysis |

mGSZ | Gene set analysis based on GSZ-scoring function and asymptotic p-value |

MHadaptive | General Markov Chain Monte Carlo for Bayesian Inference using adaptive Metropolis-Hastings sampling |

mhsmm | Parameter estimation and prediction for hidden Markov and semi-Markov models for data with multiple observation sequences |

mht | Multiple Hypotheses Testing For Variable Selection |

mhurdle | Multiple hurdle Tobit models |

mi | Missing Data Imputation and Model Checking |

mice | Multivariate Imputation by Chained Equations |

miceadds | Some additional multiple imputation functions, especially for mice |

micEcon | Microeconomic Analysis and Modelling |

micEconAids | Demand Analysis with the Almost Ideal Demand System (AIDS) |

micEconCES | Analysis with the Constant Elasticity of Substitution (CES) function |

micEconSNQP | Symmetric Normalized Quadratic Profit Function |

MiClip | A Model-based Approach to Identify Binding Sites in CLIP-Seq Data |

microbenchmark | Accurate Timing Functions |

MicroDatosEs | Utilities for Official Spanish Microdata |

micromap | Linked Micromap Plots |

micromapST | Linked Micromap Plots for U. S. States |

micropan | Microbial Pan-genome Analysis |

MicroStrategyR | MicroStrategyR Package |

MicSim | Performing continuous-time microsimulation |

midasr | Mixed Data Sampling Regression |

MigClim | Implementing dispersal into species distribution models |

migest | Useful R code for the Estimation of Migration |

migration.indices | Migration indices |

migui | Graphical User Interface of the mi Package |

MIICD | Multiple Imputation for interval censored data regression |

MILC | MIcrosimulation Lung Cancer (MILC) model |

mime | Map filenames to MIME types |

MImix | Mixture summary method for multiple imputation |

MindOnStats | Data sets included in Utts and Heckard's Mind on Statistics |

minerva | minerva: Maximal Information-Based Nonparametric Exploration R package for Variable Analysis |

Miney | Implementation of the Well-Known Game to Clear Bombs from a Given Field (Matrix) |

miniCRAN | Tools to create an internally consistent, mini version of CRAN with selected packages only |

miniGUI | tktcl quick and simple function GUI |

minimax | Minimax distribution family |

minpack.lm | R interface to the Levenberg-Marquardt nonlinear least-squares algorithm found in MINPACK, plus support for bounds |

minPtest | Gene region-level testing procedure for SNP data, using the min P test resampling approach |

minqa | Derivative-free optimization algorithms by quadratic approximation |

minque | An R Package for Linear Mixed Model Analyses |

minxent | Entropy Optimization Distributions |

miP | Multiple Imputation Plots |

MIPHENO | Mutant Identification through Probabilistic High throughput Enabled NOrmalization |

miRada | MicroRNA Microarray Data Analysis |

mirt | Multidimensional Item Response Theory |

mirtCAT | Computerized Adaptive Testing with Multidimensional Item Response Theory |

miRtest | combined miRNA- and mRNA-testing |

misc3d | Miscellaneous 3D Plots |

miscF | Miscellaneous Functions |

miscFuncs | Miscellaneous Useful Functions |

miscset | Miscellaneous Tools Set |

miscTools | Miscellaneous Tools and Utilities |

missForest | Nonparametric Missing Value Imputation using Random Forest |

MissingDataGUI | A GUI for Missing Data Exploration |

missMDA | Handling missing values with/in multivariate data analysis (principal component methods) |

MissMech | Testing Homoscedasticity, Multivariate Normality, and Missing Completely at Random |

MiST | Mixed effects Score Test for continuous outcomes |

mistat | Data sets, functions and examples from the book:"Modern Industrial Statistics" by Kenett, Zacks and Amberti |

mistral | Methods in Structural Reliability |

MitISEM | Mixture of Student t Distributions using Importance Sampling and Expectation Maximization |

mitools | Tools for multiple imputation of missing data |

mix | Estimation/multiple Imputation for Mixed Categorical and Continuous Data |

mixAK | Multivariate normal mixture models and mixtures of generalized linear mixed models including model based clustering |

mixcat | Mixed effects cumulative link and logistic regression models |

mixdist | Finite Mixture Distribution Models |

mixedQF | Estimator with Qudratics Forms in Mixeds Models |

MixedTS | Mixed Tempered Stable Distribution |

mixer | Random graph clustering |

mixexp | Design and analysis of mixture experiments |

MixGHD | Model based clustering and classification using the mixture of generalized hyperbolic distributions |

mixlm | Mixed model ANOVA and statistics for education |

mixlow | mixlow method for assessing drug synergism |

MixMAP | Implements the MixMAP algorithm |

mixOmics | Omics Data Integration Project |

mixPHM | Mixtures of proportional hazard models |

mixRasch | Mixture Rasch Models with JMLE |

mixreg | Functions to fit mixtures of regressions |

mixsep | Forensic Genetics DNA Mixture Separation |

MixSim | Simulating Data to Study Performance of Clustering Algorithms |

mixsmsn | Fitting finite mixture of scale mixture of skew-normal distributions |

mixtools | Tools for analyzing finite mixture models |

mixture | Mixture Models for Clustering and Classification |

MixtureInf | Inference for Finite Mixture Models |

mizer | Multi-species sIZE spectrum modelling in R |

mkde | 2D and 3D movement-based kernel density estimates (MKDEs) |

mkin | Routines for fitting kinetic models with one or more state variables to chemical degradation data |

MKLE | Maximum kernel likelihood estimation |

MKmisc | Miscellaneous Functions from M. Kohl |

mkssd | Efficient multi-level k-circulant supersaturated designs |

mlbench | Machine Learning Benchmark Problems |

MLCM | Maximum Likelihood Conjoint Measurement |

mlDNA | Machine Learning-based Differential Network Analysis of Transcriptome Data |

MLDS | Maximum Likelihood Difference Scaling |

mlearning | Machine learning algorithms with unified interface and confusion matrices |

MLEcens | Computation of the MLE for bivariate (interval) censored data |

mlegp | Maximum Likelihood Estimates of Gaussian Processes |

MLEP | Maximum likelihood estimate of penetrance parameters |

mleur | Maximum likelihood unit root test |

mlgt | Multi-Locus Geno-Typing |

mlica2 | Independent Component Analysis using Maximum Likelihood |

mlmmm | ML estimation under multivariate linear mixed models with missing values |

mlmRev | Examples from Multilevel Modelling Software Review |

mlogit | multinomial logit model |

mlogitBMA | Bayesian Model Averaging for Multinomial Logit Models |

mlPhaser | Multi-Locus Haplotype Phasing |

mlr | mlr: Machine Learning in R |

MLRMPA | A package for Multilinear Regression Model Population Analysis |

MM | The multiplicative multinomial distribution |

mmand | Mathematical morphology in any number of dimensions |

mmap | Map Pages of Memory |

mmcm | Modified Maximum Contrast Method |

mmds | Mixture Model Distance Sampling (mmds) |

mme | Multinomial Mixed Effects Models |

mmeln | MMELN : Estimation of multinormal mixture distribution |

mmeta | Multivariate Meta-Analysis |

MMIX | Model selection uncertainty and model mixing |

mmm | an R package for analyzing multivariate longitudinal data with multivariate marginal models |

mmm2 | Multivariate marginal models with shared regression parameters |

MMMS | Multi-Marker Molecular Signature for Treatment-specific Subgroup Identification |

mmod | Modern measures of population differentiation |

MMS | Fixed effects Selection in Linear Mixed Models |

MMST | DATASETS FROM MMST |

mnlogit | Multinomial Logit Model |

MNM | Multivariate Nonparametric Methods. An Approach Based on Spatial Signs and Ranks |

mnormt | The multivariate normal and t distributions |

MNP | R Package for Fitting the Multinomial Probit Model |

mobForest | Model based Random Forest analysis |

Mobilize | Mobilize plots and functions |

MOCCA | Multi-objective optimization for collecting cluster alternatives |

Modalclust | Hierarchical Modal Clustering |

modeest | Mode Estimation |

modehunt | Multiscale Analysis for Density Functions |

modelfree | Model-free estimation of a psychometric function |

ModelGood | Validation of risk prediction models |

ModelMap | Creates Random Forest and Stochastic Gradient Boosting Models, and applies them to GIS .img files to build detailed prediction maps |

modeltools | Tools and Classes for Statistical Models |

modiscloud | R tools for processing Level 2 Cloud Mask products from MODIS |

MODISTools | MODIS Subsetting Tools |

modTempEff | Modelling temperature effects using time series data |

moduleColor | Basic module functions |

MOJOV | Mojo Variants: Rare Variants analysis |

mokken | Mokken Scale Analysis in R |

mombf | Moment and Inverse Moment Bayes factors |

moments | Moments, cumulants, skewness, kurtosis and related tests |

Momocs | Shape Analysis of Outlines |

mondate | Keep track of dates in terms of months |

MonetDB.R | Connect MonetDB to R |

monitoR | Acoustic template detection in R |

monmlp | Monotone multi-layer perceptron neural network |

monomvn | Estimation for multivariate normal and Student-t data with monotone missingness |

MonoPoly | Functions to fit monotone polynomials |

monreg | Nonparametric monotone regression |

moonsun | Basic astronomical calculations with R |

mopsocd | MOPSOCD: Multi-objective Particle Swarm Optimization with Crowding Distance |

morgenstemning | Color schemes compatible with red-green color perception difficulties |

Morpho | Calculations and visualisations related to Geometric Morphometrics |

morse | MOdelling tools for Reproduction and Survival data in Ecotoxicology |

MorseGen | Simple raw data generator based on user-specified summary statistics |

MortalitySmooth | Smoothing and forecasting Poisson counts with P-splines |

mosaic | Project MOSAIC (mosaic-web.org) statistics and mathematics teaching utilities |

mosaicData | Project MOSAIC (mosaic-web.org) data sets |

moult | Models for Analysing Moult in Birds |

move | Visualizing and analyzing animal track data |

movMF | Mixtures of von Mises-Fisher Distributions |

mp | Multidimensional Projection Techniques |

mpa | CoWords Method |

MPAgenomics | Multi-Patient Analysis of Genomic Markers |

mpath | Regularized Linear Models |

MPCI | Multivariate Process Capability Indices (MPCI) |

mpcv | Multivariate Process Capability Vector |

MPDiR | Data sets and scripts for Modeling Psychophysical Data in R |

mph | Multiscale persistent homology |

MPINet | The package can implement the network-based metabolite pathway identification of pathways |

MplusAutomation | Automating Mplus Model Estimation and Interpretation |

mpm | Multivariate Projection Methods |

mpMap | Multi-parent RIL genetic analysis |

mpmcorrelogram | Multivariate Partial Mantel Correlogram |

mpmi | Mixed-pair mutual information estimators |

mpoly | Symbolic computation and more with multivariate polynomials |

Mposterior | Mposterior: R package for Robust and Scalable Bayes via a Median of Subset Posterior Measures |

mppa | Statistics for analysing multiple simultaneous point processes on the real line |

MPSEM | Modeling Phylogenetic Signals using Eigenvector Maps |

mpt | Multinomial Processing Tree (MPT) Models |

MPTinR | Analyze Multinomial Processing Tree Models |

MPV | Data Sets from Montgomery, Peck and Vining's Book |

mQTL | Metabolomic Quantitative Trait Locus Mapping |

mra | Analysis of Mark-Recapture data |

mratios | Inferences for ratios of coefficients in the general linear model |

MRCE | Multivariate regression with covariance estimation |

MRCV | Methods for Analyzing Multiple Response Categorical Variables (MRCVs) |

mrdrc | Model-robust concentration-response analysis |

mrds | Mark-Recapture Distance Sampling (mrds) |

mreg | Fits regression models when the outcome is partially missing |

mritc | MRI tissue classification |

mRm | An R package for conditional maximum likelihood estimation in mixed Rasch models |

MRMR | Multivariate Regression Models for Reserving |

mRMRe | R package for parallelized mRMR ensemble feature selection |

MRsurv | A multiplicative-regression model for relative survival |

MRwarping | Multiresolution time warping for functional data |

msap | Statistical analysis for Methylation-sensitive Amplification Polymorphism data |

msarc | Draws diagrams (mis)representing the results of mass spec experiments |

MsatAllele | Visualizes the scoring and binning of microsatellite fragment sizes |

MSBVAR | Markov-Switching, Bayesian, Vector Autoregression Models |

mseapca | Metabolite set enrichment analysis for factor loading in principal component analysis |

MSeasy | Preprocessing of Gas Chromatography-Mass Spectrometry (GC-MS) data |

MSeasyTkGUI | MSeasy Tcl/Tk Graphical User Interface |

mseq | Modeling non-uniformity in short-read rates in RNA-Seq data |

MSG | Data and functions for the book Modern Statistical Graphics |

msgl | High dimensional multiclass classification using sparse group lasso |

msgpackR | A library to serialize or unserialize data in MessagePack format |

msgps | Degrees of freedom of elastic net, adaptive lasso and generalized elastic net |

msir | Model-based Sliced Inverse Regression |

MSIseq | Assess Tumor Microsatellite Instability with a Decision Tree Classifier from Exome Somatic Mutations |

msm | Multi-state Markov and hidden Markov models in continuous time |

msme | Functions and Datasets for "Methods of Statistical Model Estimation" |

msos | Datasets and Functions used in Multivariate Statistics: Old School by John Marden |

MSQC | Multivariate Statistical Quality Control |

msr | Morse-Smale approximation, regression and visualization |

msSurv | Nonparametric Estimation for Multistate Models |

MST | Multivariate Survival Trees |

mstate | Data preparation, estimation and prediction in multi-state models |

MSwM | Fitting Markov Switching Models |

mtk | Mexico ToolKit library (MTK) |

MTS | All-purpose toolkit for analyzing multivariate time series (MTS) and estimating multivariate volatility models |

mtsdi | Multivariate time series data imputation |

MTurkR | R Client for the MTurk Requester API |

MUCflights | Munich Franz-Josef-Strauss Airport Pattern Analysis |

MuFiCokriging | Multi-Fidelity Cokriging models |

muhaz | Hazard Function Estimation in Survival Analysis |

multcomp | Simultaneous Inference in General Parametric Models |

multcompView | Visualizations of Paired Comparisons |

MultEq | Multiple Equivalence Tests and Simultaneous Confidence Intervals |

multgee | GEE Solver for Correlated Nominal or Ordinal Multinomial Responses |

multibiplotGUI | Multibiplot Analysis in R |

multic | Quantitative linkage analysis tools using the variance components approach |

Multiclasstesting | Performance of N-ary classification testing |

MultiCNVDetect | Multiple Copy Number Variation Detection |

multicon | Multivariate Constructs |

multicool | Permutations of multisets in cool-lex order |

multiDimBio | Multivariate Analysis and Visualization for Biological Data |

multigroup | methods for multigroup data analysis |

MultiLCIRT | Multidimensional latent class Item Response Theory models |

multilevel | Multilevel Functions |

multilevelPSA | Multilevel Propensity Score Analysis |

multinbmod | Regression analysis of overdispersed correlated count data |

MultinomialCI | Simultaneous confidence intervals for multinomial proportions according to the method by Sison and Glaz |

multinomRob | Robust Estimation of Overdispersed Multinomial Regression Models |

MultiOrd | Generation of multivariate ordinal variates |

MultiPhen | MultiPhen, a package for the genetic association testing of multiple phenotypes |

multiPIM | Variable Importance Analysis with Population Intervention Models |

multipleNCC | Weighted Cox-regression for nested case-control data |

multiplex | Analysis of Multiple Social Networks with Algebra |

multipol | multivariate polynomials |

multisensi | Multivariate Sensitivity Analysis |

MultiSV | MultiSV: an R package for identification of structural variations in multiple populations based on whole genome resequencing |

multitable | Simultaneous manipulation of multiple arrays of data, with data.list objects |

multitaper | Multitaper spectral analysis tools |

multivator | A multivariate emulator |

multiwayvcov | Multi-way standard error clustering |

MultNonParam | Multivariate Nonparametric Methods |

multxpert | Common Multiple Testing Procedures and Gatekeeping Procedures |

muma | Metabolomics Univariate and Multivariate Analysis |

MuMIn | Multi-model inference |

munfold | Metric Unfolding |

munsell | Munsell colour system |

munsellinterpol | Interpolation of Munsell renotation data to convert any hue and chroma values to CIE xyY, CIE XYZ, sRGB, CIE Lab or CIE Luv |

muRL | Mailmerge using R, LaTeX, and the Web |

muscle | Multiple Sequence Alignment |

muStat | Prentice Rank Sum Test and McNemar Test |

mutoss | Unified multiple testing procedures |

mutossGUI | A graphical user interface for the MuToss Project |

MVA | An Introduction to Applied Multivariate Analysis with R |

mvabund | statistical methods for analysing multivariate abundance data |

MVB | Mutivariate Bernoulli log-linear model |

mvbutils | Workspace organization, code and documentation editing, package prep and editing, etc |

mvc | Multi-View Clustering |

mvctm | Multivariate Variance Components Tests for Multilevel Data |

mvcwt | Wavelet analysis of multiple time series |

mvglmmRank | Multivariate Generalized Linear Mixed Models for Ranking Sports Teams |

mvinfluence | Influence Measures and Diagnostic Plots for Multivariate Linear Models |

mvmeta | Multivariate and Univariate Meta-Analysis and Meta-Regression |

mvMORPH | Multivariate Comparative Tools for Fitting Evolutionary Models to Morphometric Data |

MVN | Multivariate Normality Tests |

mvna | Nelson-Aalen estimator of the cumulative hazard in multistate models |

mvnfast | Fast multivariate normal methods |

mvngGrAd | Software for moving grid adjustment in plant breeding field trials |

mvnmle | ML estimation for multivariate normal data with missing values |

mvnormtest | Normality test for multivariate variables |

mvoutlier | Multivariate outlier detection based on robust methods |

mvpart | Multivariate partitioning |

MVPARTwrap | MVPARTwrap: Additional features for package mvpart |

MVpower | Give power for a given effect size using multivariate classification methods |

mvProbit | Multivariate Probit Models |

MVR | Mean-Variance Regularization |

mvrtn | Mean and Variance of Truncated Normal Distribution |

mvsf | Shapiro-Francia Multivariate Normality Test |

mvShapiroTest | Generalized Shapiro-Wilk test for multivariate normality |

mvSLOUCH | MultiVariate Stochastic Linear Ornstein-Uhlenbeck models for phylogenetic Comparative hypotHeses |

mvtmeta | Multivariate meta-analysis |

mvtnorm | Multivariate Normal and t Distributions |

mvtsplot | Multivariate Time Series Plot |

mwa | MWA package for causal inference in spatiotemporal event data |

mwaved | Multichannel wavelet deconvolution with additive long memory noise |

mxkssd | Efficient mixed-level k-circulant supersaturated designs |

MXM | Discovering multiple, statistically-equivalent signatures |

mycobacrvR | Integrative immunoinformatics for Mycobacterial diseases in R platform |

myepisodes | MyEpisodes RSS/API functions |

Myrrix | Interface to Myrrix. Myrrix is a complete, real-time, scalable clustering and recommender system, evolved from Apache Mahout |

Myrrixjars | External jars required for package Myrrix |

nabor | Wraps libnabo, a fast K Nearest Neighbour library for low dimensions |

nacopula | Nested Archimedean Copulas |

NADA | Nondetects And Data Analysis for environmental data |

nadiv | Functions to construct (non)additive genetic relatedness matrices and facilitate animal model analyses |

namespace | Provide namespace managment functions not (yet) present in base R |

nanop | Tools for Nanoparticle Simulation and Calculation of PDF and Total Scattering Structure Function |

NanoStringNorm | Normalize NanoString miRNA and mRNA data |

NAPPA | Performs the processing and normalisation of Nanostring miRNA and mRNA data |

nasaweather | Collection of datasets from the ASA 2006 data expo |

nat | nat: NeuroAnatomy Toolbox for Analysis of 3D Image Data |

nat.nblast | NeuroAnatomy Toolbox (nat) Extension for Assessing Neuron Similarity and Clustering |

nat.templatebrains | NeuroAnatomy Toolbox (nat) Extension for Handling Template Brains |

naturalsort | Natural Ordering |

nat.utils | File System Utility Functions for NeuroAnatomy Toolbox |

NbClust | NbClust package for determining the best number of clusters |

NBDdirichlet | NBD-Dirichlet model of consumer buying behavior for marketing research |

nbpMatching | functions for non-bipartite optimal matching |

NBPSeq | Negative Binomial Models for RNA-Sequencing Data |

nCal | Nonlinear Calibration |

NCBI2R | NCBI2R-An R package to navigate and annotate genes and SNPs |

ncbit | retrieve and build NBCI taxonomic data |

ncdf | Interface to Unidata netCDF data files |

ncdf4 | Interface to Unidata netCDF (version 4 or earlier) format data files |

ncdf4.helpers | Helper functions for use with the ncdf4 package |

ncdf.tools | Easier ncdf file handling |

nCDunnett | Noncentral Dunnett's test distribution |

ncf | spatial nonparametric covariance functions |

ncg | Computes the noncentral gamma function |

NCmisc | Miscellaneous general purpose functions |

ncvreg | Regularization paths for SCAD- and MCP-penalized regression models |

ndl | Naive Discriminative Learning |

ndtv | Network Dynamic Temporal Visualizations |

neariso | Near-Isotonic Regression |

NeatMap | Non-clustered heatmap alternatives |

needy | needy |

NEff | Calculating effective sizes based on known demographic parameters of a population |

negenes | Estimating the number of essential genes in a genome |

neldermead | R port of the Scilab neldermead module |

nephro | Biostatistics utilities for nephrology |

NestedCohort | Survival Analysis for Cohorts with Missing Covariate Information |

netClass | netClass: An R Package for Network-Based Biomarker Discovery |

NetCluster | Clustering for networks |

NetComp | Network Generation and Comparison |

NetData | Network Data for McFarland's SNA R labs |

NetIndices | Estimating network indices, including trophic structure of foodwebs in R |

netmeta | Network meta-analysis with R |

nets | Network Estimation for Time Series |

NetSim | A Social Networks Simulation Tool in R |

nettools | A Network Comparison Framework |

netweavers | NetWeAvers: Weighted Averages for Networks |

network | Classes for Relational Data |

networkDynamic | Dynamic Extensions for Network Objects |

networkDynamicData | dynamic network datasets |

networkreporting | Tools for using network reporting estimators |

networksis | Simulate bipartite graphs with fixed marginals through sequential importance sampling |

networkTomography | Tools for network tomography |

neural | Neural Networks |

neuralnet | Training of neural networks |

neuroblastoma | Neuroblastoma copy number profiles |

neuroim | neuroim: R software for reading, writing and representing brain imaging data |

neuRosim | Functions to generate fMRI data including activated data, noise data and resting state data |

Newdistns | Computes pdf, cdf, quantile and random numbers for 19 general families of distributions |

nFactors | Parallel Analysis and Non Graphical Solutions to the Cattell Scree Test |

ngram | An n-gram Babbler |

ngramr | Retrieve and plot Google n-gram data |

ngspatial | Fitting the centered autologistic and sparse spatial generalized linear mixed models for areal data |

NHANES | NHANES data |

NHEMOtree | Non-hierarchical evolutionary multi-objective tree learner to perform cost-sensitive classification |

nhlscrapr | Compiling the NHL Real Time Scoring System Database for easy use in R |

NHMM | Bayesian NHMM modeling (multiple time series) |

NHMMfdr | Compute FDR under dependence using NHMM |

NHPoisson | Modelling and validation of non homogeneous Poisson processes |

nice | Get or Set UNIX Niceness |

nicheROVER | (Niche) (R)egion and Niche (Over)lap Metrics for Multidimensional Ecological Niches |

NightDay | Night and Day Boundary Plot Funtion |

Nippon | Japanese utility functions and data |

NISTnls | Nonlinear least squares examples from NIST |

nlADG | Regression in the Normal Linear ADG Model |

nleqslv | Solve systems of non linear equations |

nlme | Linear and Nonlinear Mixed Effects Models |

nlmeODE | Non-linear mixed-effects modelling in nlme using differential equations |

nlmeU | Datasets and utility functions enhancing functionality of nlme package |

nlmrt | Functions for nonlinear least squares solutions |

nloptr | R interface to NLopt |

NLP | Natural Language Processing Infrastructure |

NLPutils | Natural Language Processing Utilities |

nlreg | Higher Order Inference for Nonlinear Heteroscedastic Models |

NLRoot | searching for the root of equation |

nlrwr | Nonlinear regression with R |

nls2 | Non-linear regression with brute force |

nlsMicrobio | Nonlinear regression in predictive microbiology |

nlsmsn | Fitting nonlinear models with scale mixture of skew-normal distributions |

nlstools | Tools for nonlinear regression diagnostics |

NlsyLinks | Utilities and kinship information for behavior genetics and developmental research using the NLSY |

nlt | A nondecimated lifting transform for signal denoising |

nlts | (non)linear time series analysis |

nlWaldTest | Wald Test of nonlinear restrictions for regression parameters |

nmcdr | Non-parametric Multiple Change-points Detection |

NMF | Algorithms and framework for Nonnegative Matrix Factorization (NMF) |

NMFN | Non-negative Matrix Factorization |

NMOF | Numerical Methods and Optimization in Finance |

nnclust | Nearest-neighbour tools for clustering |

nnet | Feed-forward Neural Networks and Multinomial Log-Linear Models |

nnls | The Lawson-Hanson algorithm for non-negative least squares (NNLS) |

nodeHarvest | Node Harvest for regression and classification |

noia | Implementation of the Natural and Orthogonal InterAction (NOIA) model |

NominalLogisticBiplot | Biplot representations of categorical data |

noncensus | U.S. Census Regional and Demographic Data |

nonlinearTseries | R package for nonlinear time series analysis |

nonnest2 | Tests of non-nested models |

nonparaeff | Nonparametric Methods for Measuring Efficiency and Productivity |

NonpModelCheck | Model Checking and Variable Selection in Nonparametric Regression |

nonrandom | Stratification and matching by the propensity score |

nontarget | Detecting, Combining and Filtering Isotope, Adduct and Homologue Series Relations in High-Resolution Mass Spectrometry (HRMS) Data |

nontargetData | Quantized simulation data of isotope pattern centroids |

nopp | Nash Optimal Party Positions |

nor1mix | Normal (1-d) Mixture Models (S3 Classes and Methods) |

nordklimdata1 | Dataset for climate analysis with data from the Nordic region |

norm | Analysis of multivariate normal datasets with missing values |

NormalGamma | Normal-gamma convolution model |

NormalLaplace | The Normal Laplace Distribution |

normalp | Package for exponential power distributions (EPD) |

NORMT3 | Evaluates complex erf, erfc, Faddeeva, and density of sum of Gaussian and Student's t |

normtest | Tests for Normality |

normwhn.test | Normality and White Noise Testing |

nortest | Tests for Normality |

nose | nose Package for R |

notifyR | Send push notifications to your smartphone via pushover.net (ACCOUNT REQUIRED!) |

noweb | Noweb system for R |

Nozzle.R1 | Nozzle Reports |

np | Nonparametric kernel smoothing methods for mixed data types |

nparcomp | Perform multiple comparisons and compute simultaneous confidence intervals for the nonparametric relative contrast effects |

nparLD | Nonparametric Analysis of Longitudinal Data in Factorial Experiments |

NPBayesImpute | Non-parametric Bayesian Multiple Imputation for Categorical Data |

npbr | Nonparametric boundary regression |

NPCD | Nonparametric Methods for Cognitive Diagnosis |

NPCirc | Nonparametric Circular Methods |

npcp | Some nonparametric tests for change-point detection in (multivariate) observations |

npde | Normalised prediction distribution errors for nonlinear mixed-effect models |

NPHMC | Sample Size Calculation for the Proportional Hazards Mixture Cure Model |

nplplot | Plotting linkage and association results |

nplr | N-Parameter Logistic Regression |

NPMLEcmprsk | Non-parametric Maximum-Likelihood Estimation for Competing-Risks Data |

npmlreg | Nonparametric maximum likelihood estimation for random effect models |

NPMPM | tertiary probabilistic model in predictive microbiology for use in food manufacture |

npmv | Nonparametric Comparison of Multivariate Samples |

NPMVCP | Nonparametric Multivariate Change Point Model |

nppbib | Nonparametric Partially-Balanced Incomplete Block Design Analysis |

npRmpi | Parallel nonparametric kernel smoothing methods for mixed data types |

NPS | Convenience functions and tests for working with the Net Promoter Score (NPS) |

NPsimex | Nonparametric Smoothing for contaminated data using Simulation-Extrapolation |

npsm | Package for Nonparametric Statistical Methods using R |

npsp | Nonparametric spatial (geo)statistics |

npst | Generalization of Hewitt's Seasonality Test |

NRAIA | Data sets from "Nonlinear Regression Analysis and Its Applications" |

nricens | NRI for risk prediction models with time to event and binary response data |

NSA | Post-normalization of total copy numbers |

nscancor | Non-Negative and Sparse CCA |

NScluster | Simulation and Estimation of the Neyman-Scott Type Spatial Cluster Models |

nsga2R | Elitist Non-dominated Sorting Genetic Algorithm based on R |

NSM3 | An R package to accompany Hollander, Wolfe, and Chicken - Nonparametric Statistical Methods, Third Edition |

nsprcomp | Non-Negative and Sparse PCA |

nsRFA | Non-supervised Regional Frequency Analysis |

nullabor | Tools for graphical inference |

numbers | Number-theoretic Functions |

numDeriv | Accurate Numerical Derivatives |

numOSL | Numeric routines for optically stimulated luminescence dating |

nutshell | Data for "R in a Nutshell" |

nutshell.audioscrobbler | Audioscrobbler data for "R in a Nutshell" |

nutshell.bbdb | Baseball Database for "R in a Nutshell" |

nws | R functions for NetWorkSpaces and Sleigh |

nycflights13 | Data about flights departing NYC in 2013 |

OAIHarvester | Harvest Metadata Using OAI-PMH v2.0 |

Oarray | Arrays with arbitrary offsets |

objectProperties | A factory of self-describing properties |

objectSignals | objectSignals |

obliclus | Cluster-based factor rotation |

obliqueRF | Oblique Random Forests from Recursive Linear Model Splits |

oblique.tree | Oblique Trees for Classification Data |

obs.agree | An R package to assess agreement between observers |

obsSens | Sensitivity analysis for Observational studies |

oc | OC Roll Call Analysis Software |

occ | Estimates PET neuroreceptor occupancies |

oce | Analysis of Oceanographic data |

ocean | Biophysical Oceanography Tools |

OceanView | Visualisation of Oceanographic Data and Model Output |

ocedata | Oceanographic datasets for Oce |

ODB | Open Document Databases (.odb) management |

odfWeave | Sweave processing of Open Document Format (ODF) files |

odfWeave.survey | Support for odfWeave on the survey package |

ODMconverter | tools to convert ODM files |

oem | Orthogonalizing Expectation maximization |

Ohmage | R Client for Ohmage 2 server |

OIdata | Data sets and supplements (OpenIntro) |

OIsurv | Survival analysis supplement to OpenIntro guide |

OjaNP | Multivariate Methods Based on the Oja Median and Related Concepts |

okmesonet | Retrieve Oklahoma Mesonet climatological data |

OligoSpecificitySystem | Oligo Specificity System |

OLScurve | OLS growth curve trajectories |

omd | filter the molecular descriptors for QSAR |

OmicKriging | OmicKriging for Phenotypic Prediction |

oncomodel | Maximum likelihood tree models for oncogenesis |

Oncotree | Estimating oncogenetic trees |

OneHandClapping | Prediction of condition-specific transcription factor interactions |

onemap | Software for constructing genetic maps in experimental crosses: full-sib, RILs, F2 and backcrosses |

ONETr | Efficient authenticated interaction with the O*NET API |

OneTwoSamples | Deal with one and two (normal) samples |

onion | octonions and quaternions |

OOmisc | Ozgur-Ozlem Miscellaneous |

OpasnetUtils | Utility functions for dealing with data in Opasnet (www.opasnet.org) environment |

OPDOE | OPtimal Design Of Experiments |

OPE | Outer-product emulator |

opefimor | Option Pricing and Estimation of Financial Models in R |

openair | Tools for the analysis of air pollution data |

OpenCL | Interface allowing R to use OpenCL |

opencpu | The OpenCPU system for embedded scientific computing and reproducible research |

openintro | OpenIntro data sets and supplemental functions |

OpenMPController | Control number of OpenMP threads dynamically |

openNLP | Apache OpenNLP Tools Interface |

openNLPdata | Apache OpenNLP Jars and Basic English Language Models |

OpenRepGrid | Tools to analyse repertory grid data |

OpenStreetMap | Access to open street map raster images |

opentraj | Tools for Creating and Analysing Air Trajectory Data |

openxlsx | .xlsx reading, writing and editing |

operators | Additional binary operators for the R language |

operator.tools | Utilities for working with R's operators |

OPI | Open Perimetry Interface |

opm | Analysing Phenotype Microarray and Growth Curve Data |

opmdata | Example data for analysing OmniLog(R) Phenotype Microarray data |

oposSOM | Package for analysis and visualization of metagenes |

ops | Optimal Power Space Transformation |

optAUC | Optimal Combinations of Diagnostic Tests Based on AUC |

optBiomarker | Estimation of optimal number of biomarkers for two-group microarray based classifications at a given error tolerance level for various classification rules |

optextras | A set of tools to support optimization methods (function minimization with at most bounds and masks) |

OptHedging | Estimation of value and hedging strategy of call and put options |

OptimalCutpoints | Computing optimal cutpoints in diagnostic tests |

optimbase | R port of the Scilab optimbase module |

optimsimplex | R port of the Scilab optimsimplex module |

optimx | A Replacement and Extension of the optim() Function |

OptInterim | Optimal Two and Three Stage Designs for Single-Arm and Two-Arm Randomized Controlled Trials with a Long-Term Binary Endpoint |

optiRum | Miscellaneous functions for finance / credit risk analysts |

optiscale | Optimal scaling |

optmatch | Functions for optimal matching |

optparse | Command line option parser |

optpart | Optimal partitioning of similarity relations |

optR | Optimization Toolbox for solving linear systems |

optrees | Optimal Trees in Weighted Graphs |

ora | Convenient Tools for Working with Oracle Databases |

orca | Orca: Counting graphlet orbits in sparse graphs |

ORCI | Several confidence intervals for the odds ratio |

orclus | ORCLUS subspace clustering |

ORCME | Order Restricted Clustering for Microarray Experiments |

orcutt | Estimate procedure in case of first order autocorrelation |

ordBTL | Modelling comparison data with ordinal response |

orddom | Ordinal Dominance Statistics |

ORDER2PARENT | Estimate parent distributions with data of several order statistics |

orderbook | Orderbook visualization/Charting software |

OrdFacReg | Least Squares, Logistic, and Cox-Regression with Ordered Predictors |

ordinal | Regression Models for Ordinal Data |

ordinalgmifs | Ordinal Regression for High-dimensional Data |

OrdinalLogisticBiplot | Biplot representations of ordinal variables |

OrdLogReg | Ordinal Logic Regression |

OrdMonReg | Compute least squares estimates of one bounded or two ordered isotonic regression curves |

OrdNor | Concurrent generation of ordinal and normal data with given correlation matrix and marginal distributions |

ordPens | Selection and/or Smoothing of Ordinal Predictors |

OrgMassSpecR | Organic Mass Spectrometry |

ORIClust | Order-restricted Information Criterion-based Clustering Algorithm |

orientlib | Support for orientation data |

orloca | The package deals with Operations Research LOCational Analysis models |

orloca.es | Spanish version of orloca package |

ORMDR | ORMDR |

oro.dicom | Rigorous - DICOM Input / Output |

oro.nifti | Rigorous - NIfTI+ANALYZE+AFNI Input / Output |

oro.pet | Rigorous - Positron Emission Tomography |

orQA | Order Restricted Assessment Of Microarray Titration Experiments |

orsk | Converting Odds Ratio to Relative Risk in Cohort Studies with Partial Data Information |

orthogonalsplinebasis | Orthogonal Bspline Basis Functions |

orthopolynom | Collection of functions for orthogonal and orthonormal polynomials |

osDesign | Design and analysis of observational studies |

osmar | OpenStreetMap and R |

ouch | Ornstein-Uhlenbeck models for phylogenetic comparative hypotheses |

outbreaker | Bayesian reconstruction of disease outbreaks by combining epidemiologic and genomic data |

OutbreakTools | basic tools for the analysis of disease outbreaks |

OutlierDC | Outlier Detection using quantile regression for Censored Data |

OutlierDM | Outlier detection for replicated high-throughput data |

outliers | Tests for outliers |

OUwie | Analysis of evolutionary rates in an OU framework |

overlap | Estimates of coefficient of overlapping for animal activity patterns |

oz | Plot the Australian coastline and states |

p2distance | Welfare's Synthetic Indicator |

p3state.msm | Analyzing survival data |

pa | Performance Attribution for Equity Portfolios |

pacbpred | PAC-Bayesian Estimation and Prediction in Sparse Additive Models |

pack | Convert values to/from raw vectors |

packClassic | Toy example of Pack Classic |

packdep | Mapping dependencies among R packages |

packHV | A few useful functions for statisticians |

packrat | A dependency management system for projects and their R package dependencies |

packS4 | Toy example of S4 package |

paf | Attributable Fraction Function for Censored Survival Data |

PAGI | The package can identify the dysregulated KEGG pathways based on global influence from the internal effect of pathways and crosstalk between pathways |

PAGWAS | Pathway analysis methods for genomewide association data |

pairedCI | Confidence intervals for the ratio of locations and for the ratio of scales of two paired samples |

PairedData | Paired Data Analysis |

pairheatmap | A tool for comparing heatmaps |

PairViz | Visualization using Eulerian tours and Hamiltonian decompositions |

pairwise | Rasch Model Parameters by Pairwise Algorithm |

pairwiseCI | Confidence intervals for two sample comparisons |

palaeoSig | Significance tests for palaeoenvironmental reconstructions |

paleobioDB | paleobioDB: a package for downloading, visualizing and processing data from Paleobiology Database |

paleofire | paleofire: an R package to analyse sedimentary charcoal records from the Global Charcoal Database to reconstruct past biomass burning |

paleoMAS | Paleoecological Analysis |

paleotree | Paleontological and Phylogenetic Analyses of Evolution |

paleoTS | Analyze paleontological time-series |

palinsol | Insolation for palaeoclimate studies |

pamm | Power analysis for random effects in mixed models |

pamr | Pam: prediction analysis for microarrays |

pan | Multiple imputation for multivariate panel or clustered data |

pander | An R pandoc writer |

panelAR | Estimation of Linear AR(1) Panel Data Models with Cross-Sectional Heteroskedasticity and/or Correlation |

Paneldata | Linear models for panel data |

papeR | A toolbox for writing Sweave or other LaTeX-based papers and reports |

ParallelForest | Random Forest Classification with Parallel Computing |

parallelize.dynamic | Automate parallelization of function calls by means of dynamic code analysis |

parallelMap | Unified interface to some popular parallelization back-ends for interactive usage and package development |

parallelMCMCcombine | Methods for combining independent subset Markov chain Monte Carlo (MCMC) posterior samples to estimate a posterior density given the full data set |

ParamHelpers | Helpers for parameters in black-box optimization, tuning and machine learning |

paramlink | Parametric linkage analysis in R |

paran | Horn's Test of Principal Components/Factors |

parboost | Distributed Model-Based Boosting |

parcor | Regularized estimation of partial correlation matrices |

ParDNAcopy | parallel implementation of the "segment" function of package "DNAcopy" |

ParentOffspring | Conduct the Parent-Offspring Test Using Monomorphic SNP Markers |

ParetoPosStable | Computing, fitting and validating the Pareto Positive Stable distribution |

parfm | Parametric Frailty Models |

parfossil | Parallelized functions for palaeoecological and palaeogeographical analysis |

parma | Portfolio Allocation and Risk Management Applications |

parmigene | Parallel Mutual Information estimation for Gene Network reconstruction |

parsedate | Recognize and Parse Dates in Various Formats, Including All ISO 8601 Formats |

partDSA | Partitioning using deletion, substitution, and addition moves |

partialOR | Partial Odds Ratio |

partitionMap | Partition Maps |

partitionMetric | Compute a distance metric between two partitions of a set |

partitions | Additive partitions of integers |

partsm | Periodic Autoregressive Time Series Models |

party | A Laboratory for Recursive Partytioning |

partykit | A Toolkit for Recursive Partytioning |

parviol | Parviol |

PAS | Polygenic Analysis System (PAS) |

pass | Prediction and Stability Selection of Tuning Parameters |

pastecs | Package for Analysis of Space-Time Ecological Series |

pastis | Phylogenetic Assembly with Soft Taxonomic Inferences |

PASWR | PROBABILITY and STATISTICS WITH R |

patchDVI | Package to patch .dvi files |

patchPlot | Scatterplots of image patches |

pathClass | Classification using biological pathways as prior knowledge |

pathdiagram | Basic functions for drawing path diagrams |

pathmox | Pathmox Approach of Segmentation Trees in Partial Least Squares Path Modeling |

PatternClass | Class-focused pattern metric comparisons using simulation |

pauwels2014 | Bayesian Experimental Design for Systems Biology |

pavo | Perceptual analysis, visualization and organization of spectral color data in R |

pawacc | Physical activity with accelerometers |

PAWL | Implementation of the PAWL algorithm |

pbapply | Adding Progress Bar to '*apply' Functions |

pbatR | P2BAT |

PBC | Product of Bivariate Copulas (PBC) |

PBD | Protracted birth-death model of diversification |

pbdBASE | Programming with Big Data – Base Wrappers for Distributed Matrices |

pbdDEMO | Programming with Big Data – Demonstrations of pbd Packages |

pbdDMAT | Programming with Big Data – Distributed Matrix Methods |

pbdMPI | Programming with Big Data – Interface to MPI |

pbdNCDF4 | Programming with Big Data – Interface to Parallel Unidata NetCDF4 Format Data Files |

pbdPROF | Programming with Big Data — MPI Profiling Tools |

pbdSLAP | Programming with Big Data – Scalable Linear Algebra Packages |

PBImisc | A set of datasets used in my classes or in the book ,,Modele liniowe i mieszane w R, wraz z przykladami w analizie danych” |

pbivnorm | Vectorized Bivariate Normal CDF |

pbkrtest | Parametric bootstrap and Kenward Roger based methods for mixed model comparison |

pbo | Probability of Backtest Overfitting |

pbs | Periodic B Splines |

PBSadmb | ADMB for R Using Scripts or GUI |

PBSddesolve | Solver for Delay Differential Equations |

PBSmapping | Mapping Fisheries Data and Spatial Analysis Tools |

PBSmodelling | GUI Tools Made Easy: Interact with Models, Explore Data, Give Dynamic Presentations |

pca3d | Three dimensional PCA plots |

pcaL1 | Three L1-Norm PCA Methods |

pcalg | Methods for graphical models and causal inference |

PCAmixdata | Multivariate analysis for a mixture of quantitative and qualitative data |

pcaPA | Parallel Analysis for ordinal and numeric data using polychoric and Pearson correlations with S3 classes |

pcaPP | Robust PCA by Projection Pursuit |

PCDSpline | Semiparametric regression analysis of panel count data using monotone splines |

pcg | Preconditioned Conjugate Gradient Algorithm for solving Ax=b |

PCGSE | Principal Component Gene Set Enrichment |

PCICt | Implementation of POSIXct work-alike for 365 and 360 day calendars |

pcIRT | IRT models for polytomous and continuous item responses |

PCIT | PCIT algorithm - Partial Correlation Coefficient with Information Theory |

pcnetmeta | Methods for patient-centered network meta-analysis |

PCovR | Principal Covariates Regression |

PCPS | PCPS - Principal Coordinates of Phylogenetic Structure |

pcrcoal | A package implementing the coalescent approach to PCR simulation developed by Weiss and von Haeseler (NAR, 1997) |

PCS | Calculate the probability of correct selection (PCS) |

pcse | Panel-Corrected Standard Error Estimation in R |

pdc | Permutation Distribution Clustering |

pdfCluster | Cluster analysis via nonparametric density estimation |

pdfetch | Fetch economic and financial time series data from public sources |

pdist | Partitioned Distance Function |

pdmod | Proximal/distal modeling framework for Pavlovian conditioning phenomena |

pdR | panel data regression |

PDSCE | Positive definite sparse covariance estimators |

peacots | Periodogram Peaks in Correlated Time Series |

Peaks | Peaks |

pear | Package for Periodic Autoregression Analysis |

pearson7 | Maximum Likelihood Inference for the Pearson VII Distribution with Shape Parameter 3/2 |

PearsonDS | Pearson Distribution System |

PearsonICA | Independent component analysis using score functions from the Pearson system |

pec | Prediction Error Curves for Survival Models |

pedantics | Functions to facilitate power and sensitivity analyses for genetic studies of natural populations |

PedCNV | An implementation for association analysis with CNV data |

pedgene | Gene-level statistics for Pedigree Data |

pedigree | Pedigree functions |

pedigreemm | Pedigree-based mixed-effects models |

pedometrics | Pedometric Tools and Techniques |

pegas | Population and Evolutionary Genetics Analysis System |

PEIP | Functions for Aster Book on Inverse Theory |

PEMM | A Penalized EM algorithm incorporating missing-data mechanism |

penalized | L1 (lasso and fused lasso) and L2 (ridge) penalized estimation in GLMs and in the Cox model |

penalizedLDA | Penalized classification using Fisher's linear discriminant |

penalizedSVM | Feature Selection SVM using penalty functions |

pencopula | Flexible Copula Density Estimation with Penalized Hierarchical B-Splines |

pendensity | Density Estimation with a Penalized Mixture Approach |

penDvine | Flexible Pair-Copula Estimation in D-vines using Bivariate Penalized Splines |

PenLNM | Group l1 penalized logistic normal multinomial (LNM) regression model |

penMSM | Estimating regularized multistate models using L1 penalties |

pensim | Simulation of high-dimensional data and parallelized repeated penalized regression |

peperr | Parallelised Estimation of Prediction Error |

peplib | Peptide Library Analysis Methods |

PepPrep | Insilico peptide mutation, digestion and homologous comparison |

peptider | Evaluation of diversity in nucleotide libraries |

Peptides | Calculate indices and theoretical physicochemical properties of peptides and protein sequences |

pequod | Moderated regression package |

perARMA | Package for Periodic Time Series Analysis |

PerfMeas | PerfMeas: Performance Measures for ranking and classification tasks |

PerformanceAnalytics | Econometric tools for performance and risk analysis |

performanceEstimation | An infra-structure for performance estimation of predictive models |

perm | Exact or Asymptotic permutation tests |

PermAlgo | Permutational algorithm to simulate survival data |

PerMallows | Permutations and Mallows distributions |

permGPU | permPGU: Using GPUs in Statistical Genomics |

permtest | Permutation test to compare variability within and distance between two groups |

permute | Functions for generating restricted permutations of data |

PERregress | Regression Functions and Datasets |

perry | Resampling-based prediction error estimation for regression models |

persiandictionary | English to Persian dictionary |

perturb | Tools for evaluating collinearity |

pesticides | Analysis of single serving and composite pesticide residue measurements |

PET | Simulation and Reconstruction of PET Images |

PF | Prevented fraction |

pgam | Poisson-Gamma Additive Models |

pgirmess | Data analysis in ecology |

pglm | panel generalized linear model |

pGLS | Generalized Least Square in comparative Phylogenetics |

PGM2 | Recursive method for construction of nested resolvable designs and uniform designs associated |

pgmm | Parsimonious Gaussian mixture models |

pgs | Precision of Geometric Sampling |

phalen | Phalen Algorithms and Functions |

phangorn | Phylogenetic analysis in R |

PharmPow | Pharmacometric Power calculations for mixed study designs |

phaseR | Phase Plane Analysis of One and Two Dimensional Autonomous ODE Systems |

PhaseType | Inference for Phase-type Distributions |

phcfM | Modelling anthropogenic deforestation |

pheatmap | Pretty Heatmaps |

phenability | Nonparametric Stability Analysis |

phenex | Auxiliary functions for phenological data analysis |

phenmod | Auxiliary functions for phenological data processing, modelling and result handling |

pheno | Auxiliary functions for phenological data analysis |

pheno2geno | Pheno2Geno - Generating genetic markers and maps from molecular phenotypes |

phenology | Tools to manage a parametric function that describes phenology |

PHeval | Evaluation of the proportional hazards assumption with a standardized score process |

phia | Post-Hoc Interaction Analysis |

phmm | Proportional Hazards Mixed-effects Model (PHMM) |

phom | Persistent Homology in R |

phonR | R tools for phoneticians and phonologists |

phonTools | Functions for phonetics in R |

phreeqc | R interface to the phreeqc geochemical modeling program |

phtt | Panel Data Analysis with Heterogeneous Time Trends |

PhViD | PhViD: an R package for PharmacoVigilance signal Detection |

PhyActBedRest | Marks periods of sleep in Actigraph accelerometer data |

phyclust | Phylogenetic Clustering (Phyloclustering) |

phyext | An extension of some of the classes in phylobase. Tree objects now support subnodes on branches |

phylin | Spatial interpolation of genetic data |

phylobase | Base package for phylogenetic structures and comparative data |

phyloclim | Integrating Phylogenetics and Climatic Niche Modeling |

phyloland | Modelling Competitive Exclusion and Limited Dispersal in a Statistical Phylogeographic Framework |

phylolm | Phylogenetic Linear Regression |

phylosim | R package for simulating biological sequence evolution |

phylotools | Phylogenetic tools for Eco-phylogenetics |

phyloTop | Phylogenetic Tree Topological Properties Evaluator |

phyreg | Implements the Phylogenetic Regression of Grafen (1989) |

PhysicalActivity | Process Physical Activity Accelerometer Data |

phytools | Phylogenetic Tools for comparative biology (and other things) |

pi0 | Estimating the proportion of true null hypotheses for FDR |

picante | R tools for integrating phylogenies and ecology |

picasso | Pathwise Calibrated Sparse Shooting Algorithm |

PIGE | Self contained gene set analysis for gene- and pathway-environment interaction analysis |

PIGShift | Polygenic Inverse Gamma rate Shifts |

PIN | Estimates the parameters of a trading-tree model for the computation of the probability of informed trading |

pingr | Check If a Remote Computer is Up |

pipeR | Pipe operator and function |

PIPS | Predicted Interval Plots |

pitchRx | Tools for Harnessing MLBAM Gameday data and Visualizing PITCHf/x |

PivotalR | R front-end to PostgreSQL and Pivotal (Greenplum) database, wrapper for MADlib |

pixmap | Bitmap Images (“Pixel Maps”) |

PK | Basic Non-Compartmental Pharmacokinetics |

PKfit | A Data Analysis Tool for Pharmacokinetics |

pkgKitten | Create Simple Packages Which Do Not Upset R CMD check |

pkgmaker | Package development utilities |

PKgraph | Model diagnostics for population pharmacokinetic models |

pkgutils | pkgutils – Utilities for creating R packages |

PKI | Public Key Infrastucture for R based on the X.509 standard |

PKmodelFinder | Software for Pharmacokinetic model |

PKPDmodels | Pharmacokinetic/pharmacodynamic models |

PKreport | A reporting pipeline for checking population pharmacokinetic model assumption |

pks | Probabilistic Knowledge Structures |

PKtools | unified computational interfaces for pop PK |

plan | Tools for project planning |

planar | Multilayer optics |

planor | Generation of regular factorial designs |

PlayerRatings | Dynamic Updating Methods For Player Ratings Estimation |

playwith | A GUI for interactive plots using GTK+ |

plfm | Probabilistic latent feature analysis of two-way two-mode frequency data |

plgp | Particle Learning of Gaussian Processes |

PLIS | Multiplicity control using Pooled LIS statistic |

plm | Linear Models for Panel Data |

plmDE | Additive partially linear models for differential gene expression analysis |

plmm | Partially Linear Mixed Effects Model |

pln | Polytomous logit-normit (graded logistic) model estimation |

plot2groups | Plot scatter points for two groups of values |

plot3D | Plotting multi-dimensional data |

plot3Drgl | Plotting multi-dimensional data - using rgl |

plotGoogleMaps | Plot spatial or spatio-temporal data over Google Maps |

plotKML | Visualization of spatial and spatio-temporal objects in Google Earth |

plotMCMC | MCMC Diagnostic Plots |

plotmo | Plot a model's response while varying the values of the predictors |

plotpc | Plot principal component histograms around a scatter plot |

PlotRegionHighlighter | Creates an envelope that surrounds a set of points plotted in a two dimensional space |

plotrix | Various plotting functions |

plotSEMM | Graphing nonlinear latent variable interactions in SEMM |

plRasch | Log Linear by Linear Association models and Rasch family models by pseudolikelihood estimation |

PLRModels | Statistical inference in partial linear regression models |

pls | Partial Least Squares and Principal Component regression |

plsdepot | Partial Least Squares (PLS) Data Analysis Methods |

plsdof | Degrees of Freedom and Statistical Inference for Partial Least Squares Regression |

plsgenomics | PLS analyses for genomics |

plspm | Tools for Partial Least Squares Path Modeling (PLS-PM) |

plsRbeta | Partial least squares Regression for beta regression models |

plsRcox | Partial least squares Regression for Cox models and related techniques |

plsRglm | Partial least squares Regression for generalized linear models |

plugdensity | Plug-in Kernel Density Estimation |

plumbr | Mutable and dynamic data models |

plus | Penalized Linear Unbiased Selection |

plusser | A Google+ Interface for R |

plyr | Tools for splitting, applying and combining data |

PMA | Penalized Multivariate Analysis |

pmcgd | pmcgd |

pmclust | Parallel Model-Based Clustering |

PMCMR | Calculate Pairwise Multiple Comparisons of Mean Rank Sums |

pmg | Poor Man's GUI |

pmlr | Penalized Multinomial Logistic Regression |

pmml | Generate PMML for various models |

pmmlTransformations | Transforms input data from a PMML perspective |

pmr | Probability Models for Ranking Data |

png | Read and write PNG images |

pnmtrem | Probit-Normal Marginalized Transition Random Effects Models |

pnn | Probabilistic neural networks |

pocrm | Dose-finding in drug combination Phase I trials using the partial order continual reassessment method (PO-CRM) |

poibin | The Poisson Binomial Distribution |

PoiClaClu | Classification and clustering of sequencing data based on a Poisson model |

poilog | Poisson lognormal and bivariate Poisson lognormal distribution |

PoisNor | Simultaneous generation of multivariate data with Poisson and normal marginals |

poisson.glm.mix | Fit high dimensional mixtures of Poisson GLMs |

PoissonSeq | Significance analysis of sequencing data based on a Poisson log linear model |

poistweedie | Poisson-Tweedie exponential family models |

poLCA | Polytomous variable Latent Class Analysis |

polidata | Political Data Interface in R |

pollstR | R client for the Huffpost Pollster API |

polspline | Polynomial spline routines |

polyaAeppli | Implementation of the Polya-Aeppli distribution |

polyapost | Simulating from the Polya posterior |

polyclip | Polygon Clipping |

polycor | Polychoric and Polyserial Correlations |

polyCub | Cubature over Polygonal Domains |

polynom | A collection of functions to implement a class for univariate polynomial manipulations |

PolynomF | Polynomials in R |

PolyPatEx | Paternity exclusion in autopolyploid species |

polysat | Tools for Polyploid Microsatellite Analysis |

polySegratio | Simulate and test marker dosage for dominant markers in autopolyploids |

polySegratioMM | Bayesian mixture models for marker dosage in autopolyploids |

polytomous | Polytomous logistic regression for fixed and mixed effects |

polywog | Bootstrapped Basis Regression with Oracle Model Selection |

pom | POM - Patch Occupancy Models |

Pomic | Pomic |

PoMoS | Polynomial (ordinary differential equation) Model Search |

pomp | Statistical inference for partially observed Markov processes |

pooh | Partial Orders and Relations |

popbio | Construction and analysis of matrix population models |

popdemo | Provides Tools For Demographic Modelling Using Projection Matrices |

PopED | Population (and individual) optimal Experimental Design |

popgen | Statistical and Population Genetics |

PopGenKit | Useful functions for (batch) file conversion and data resampling in microsatellite datasets |

PopGenome | An Efficient Swiss Army Knife for Population Genomic Analyses |

PopGenReport | PopGen: A simple way to analyse and visualize population genetic data |

popgraph | This is an R package that constructs and manipulates population graphs |

popKorn | For interval estimation of mean of selected populations |

poppr | an R package for genetic analysis of populations with mixed reproduction |

popRange | popRange: A spatially and temporally explicit forward genetic simulator |

popReconstruct | Reconstruct population counts, fertility, mortality and migration rates of human populations of the recent past |

popsom | Self-Organizing Maps With Population Based Convergence Criterion |

portes | Portmanteau Tests for Univariate and Multivariate Time Series Models |

portfolio | Analysing equity portfolios |

portfolioSim | Framework for simulating equity portfolio strategies |

PortRisk | Portfolio Risk Analysis |

potts | Markov Chain Monte Carlo for Potts Models |

PottsUtils | Utility Functions of the Potts Models |

powell | Powell's UObyQA algorithm |

PoweR | Computation of power and level tables for hypothesis tests |

Power2Stage | Power and Sample size distribution of 2-stage BE studies via simulations |

powerAnalysis | Power analysis in experimental design |

powerGWASinteraction | Power Calculations for GxE and GxG Interactions for GWAS |

poweRlaw | Fitting heavy tailed distributions: the poweRlaw package |

powerMediation | Power/Sample size calculation for mediation analysis, simple linear regression, logistic regression, or longitudinal study |

powerpkg | Power analyses for the affected sib pair and the TDT design |

powerr | Analysis of Power System |

powerSurvEpi | Power and sample size calculation for survival analysis of epidemiological studies |

PowerTOST | Power and Sample size based on two one-sided t-tests (TOST) for (bio)equivalence studies |

PP | Person Parameter estimation |

ppcor | Partial and Semi-partial (Part) correlation |

ppiPre | Predict protein-protein interactions based on functional and topological similarities |

ppls | Penalized Partial Least Squares |

ppmlasso | PPM-LASSO: Point process models with LASSO penalties |

pps | Functions for PPS sampling |

PPtree | Projection pursuit classification tree |

pqantimalarials | web tool for estimating under-five deaths caused by poor-quality antimalarials in sub-Saharan Africa |

prabclus | Functions for clustering of presence-absence, abundance and multilocus genetic data |

pracma | Practical Numerical Math Functions |

PracTools | Tools for Designing and Weighting Survey Samples |

pragma | Provides a pragma / directive / keyword syntax for R |

praktikum | Kvantitatiivsete meetodite praktikumi asjad / Functions used in the course "Quantitative methods in behavioural sciences" (SHPH.00.004), University of Tartu |

predfinitepop | Predictive Inference on Totals and Averages of Finite Populations Segmented in Planned and Unplanned Domains |

PredictABEL | Assessment of risk prediction models |

PredictiveRegression | Prediction Intervals for Three Basic Statistical Models |

predictmeans | Calculate Predicted Means for Linear Models |

predmixcor | Classification rule based on Bayesian mixture models with feature selection bias corrected |

prefmod | Utilities to fit paired comparison models for preferences |

PReMiuM | Dirichlet Process Bayesian Clustering, Profile Regression |

PresenceAbsence | Presence-Absence Model Evaluation |

preseqR | Predicting Species Accumulation |

PResiduals | Probability scale residuals and residual correlations |

prettyGraphs | publication-quality graphics |

prettyR | Pretty descriptive stats |

prevalence | The prevalence package |

prevR | Estimating regional trends of a prevalence from a DHS |

prim | Patient Rule Induction Method (PRIM) |

primer | Functions and data for A Primer of Ecology with R |

primerTree | primerTree |

princurve | Fits a Principal Curve in Arbitrary Dimension |

prinsimp | Finding and plotting simple basis vectors for multivariate data |

PRISMA | Protocol Inspection and State Machine Analysis |

PrivateLR | Differentially private regularized logistic regression |

prLogistic | Estimation of Prevalence Ratios using Logistic Models |

prob | Elementary Probability on Finite Sample Spaces |

ProbForecastGOP | Probabilistic weather forecast using the GOP method |

probsvm | probsvm: Class probability estimation for Support Vector Machines |

pROC | display and analyze ROC curves |

ProDenICA | Product Density Estimation for ICA using tilted Gaussian density estimates |

prodlim | Product-limit estimation. Kaplan-Meier and Aalen-Johansson method for censored event history (survival) analysis |

PROFANCY | The package can prioritize candidate disease metabolites based on global functional relationships between metabolites in the context of metabolic pathways |

profdpm | Profile Dirichlet Process Mixtures |

ProfessR | Grades Setting and Exam Maker |

ProfileLikelihood | Profile Likelihood for a Parameter in Commonly Used Statistical Models |

profileModel | Tools for profiling inference functions for various model classes |

profileR | Profile Analysis of Multivariate Data in R |

profr | An alternative display for profiling information |

proftools | Profile Output Processing Tools for R |

ProgGUIinR | support package for "Programming Graphical User Interfaces in R" |

prognosticROC | Prognostic ROC curves for evaluating the predictive capacity of a binary test |

proj4 | A simple interface to the PROJ.4 cartographic projections library |

ProjectTemplate | Automates the creation of new statistical analysis projects |

propagate | Propagation of Uncertainty |

PropCIs | Various confidence interval methods for proportions |

PropClust | Propensity Clustering and Decomposition |

propOverlap | Feature (gene) selection based on the Proportional Overlapping Scores |

PropScrRand | Propensity score methods for assigning treatment in randomized trials |

prospectr | Miscellaneous functions for processing and sample selection of vis-NIR diffuse reflectance data |

proteomicdesign | Optimization of a multi-stage proteomic study |

protiq | Protein (identification and) quantification based on peptide evidence |

proto | Prototype object-based programming |

protoclass | Interpretable classification with prototypes |

PROTOLIDAR | PRocess TOol LIdar DAta in R |

protr | Protein Sequence Descriptor Calculation and Similarity Computation with R |

protViz | Visualizing and Analyzing Mass Spectrometry Related Data in Proteomics |

proxy | Distance and Similarity Measures |

pRSR | Test of periodicity using response surface regression |

pryr | Tools for computing on the language |

PSAboot | Bootstrapping for Propensity Score Analysis |

PSAgraphics | Propensity Score Analysis Graphics |

psbcGroup | Penalized semi-parametric Bayesian Cox (PSBC) models with shrinkage and grouping priors |

PSCBS | Analysis of Parent-Specific DNA Copy Numbers |

pscl | Political Science Computational Laboratory, Stanford University |

psd | Adaptive, sine-multitaper power spectral density estimation |

psData | A package to download regularly maintained political science data sets and make commonly used, but infrequently updated variables based on this data |

pse | Parameter space exploration with Latin Hypercubes |

pseudo | Pseudo - observations |

psgp | Projected Spatial Gaussian Process (psgp) methods |

pSI | Specificity Index Statistic |

psidR | Build panel data sets from PSID raw data |

PSM | Non-Linear Mixed-Effects modelling using Stochastic Differential Equations |

PSMix | Population structure inference using mixture model |

pso | Particle Swarm Optimization |

pspearman | Spearman's rank correlation test |

pspline | Penalized Smoothing Splines |

PST | Probabilistic Suffix Trees and Variable Length Markov Chains |

PsumtSim | Simulations of grouped responses relative to baseline |

psy | Various procedures used in psychometry |

psych | Procedures for Psychological, Psychometric, and Personality Research |

psychometric | Applied Psychometric Theory |

psychomix | Psychometric Mixture Models |

psychotools | Infrastructure for Psychometric Modeling |

psychotree | Recursive Partitioning Based on Psychometric Models |

psyphy | Functions for analyzing psychophysical data in R |

psytabs | Produce well-formatted tables for psychological research |

pt | Computational models for prospect theory and other theories of risky decision making |

PTAk | Principal Tensor Analysis on k modes |

PTE | Personalized Treatment Evaluator |

ptinpoly | Point-In-Polyhedron Test (2D and 3D) |

PtProcess | Time Dependent Point Process Modelling |

ptw | Parametric Time Warping |

PubBias | Performs simulation study to look for publication bias, using a technique described by Ioannidis and Trikalinos; Clin Trials. 2007;4(3):245-53 |

pubmed.mineR | Text mining of PubMed Abstracts |

PubMedWordcloud | PubMed Word Clouds |

pumilioR | Pumilio in R |

PurBayes | Bayesian Estimation of Tumor Purity and Clonality |

pushoverr | Send push notifications using Pushover |

PVAClone | Population Viability Analysis with Data Cloning |

pvar | p-variation, calculation and application |

pvclass | P-values for Classification |

pvclust | Hierarchical Clustering with P-Values via Multiscale Bootstrap Resampling |

PVR | Computes phylogenetic eigenvectors regression (PVR) and phylogenetic signal-representation curve (PSR) (with null and Brownian expectations) |

pvsR | An R package to interact with the Project Vote Smart API for scientific research |

pwr | Basic functions for power analysis |

PwrGSD | Power in a Group Sequential Design |

pwt | Penn World Table (Versions 5.6, 6.x, 7.x) |

pwt8 | Penn World Table (Version 8.0) |

pxR | PC-Axis with R |

pxweb | R interface to the PX-Web/PC-Axis API |

pycno | Pycnophylactic Interpolation |

pyramid | Functions to draw population pyramid |

qat | Quality Assurance Toolkit |

QCA | A Package for Qualitative Comparative Analysis |

QCA3 | Yet another package for Qualitative Comparative Analysis |

QCAGUI | QCA Graphical User Interface |

qcc | Quality Control Charts |

QCGWAS | Quality Control of Genome Wide Association Study results |

qcr | Quality control and reliability |

qdap | Bridging the gap between qualitative data and quantitative analysis |

qdapDictionaries | Dictionaries and word lists for the qdap package |

qdapRegex | Regular Expression Removal, Extraction, and Replacement Tools |

qdapTools | Tools for the qdap package |

qgraph | Network-based data visualization |

qgtools | Tools for Quantitative Genetics Data Analyses |

qiimer | Work with QIIME Output Files in R |

qlcMatrix | Utility sparse matrix functions for Quantitative Language Comparison |

qLearn | Estimation and inference for Q-learning |

qlspack | Quasi Least Square Package |

qmap | Statistical transformations for post-processing climate model output |

qmethod | Analysis of subjective perspectives using Q methodology |

qmrparser | Parser combinator in R |

QoLR | Analysis of Health-Related Quality of Life in oncology |

qp | q-order partial correlation graph search algorithm |

qpcR | Modelling and analysis of real-time PCR data |

qPCR.CT | qPCR data analysis and plot package |

qqman | Q-Q and manhattan plots for GWAS data |

qrfactor | Simultaneous simulation of Q and R mode factor analyses with Spatial data |

QRM | Provides R-language Code to Examine Quantitative Risk Management Concepts |

qrnn | Quantile regression neural network |

QSARdata | Quantitative Structure Activity Relationship (QSAR) Data Sets |

qtbase | Interface between R and Qt |

qtl | Tools for analyzing QTL experiments |

qtlbim | QTL Bayesian Interval Mapping |

qtlbook | Datasets for the R/qtl book |

qtlDesign | Design of QTL experiments |

qtlhot | Inference for QTL Hotspots |

qtlmt | Tools for mapping multiple complex traits |

qtlnet | Causal Inference of QTL Networks |

QTLRel | Tools for mapping of quantitative traits of genetically related individuals and calculating identity coefficients from a pedigree |

qtpaint | Qt-based painting infrastructure |

qtutils | Miscellaneous Qt-based utilities |

quad | Exact permutation moments of quadratic form statistics |

quadprog | Functions to solve Quadratic Programming Problems |

quadrupen | Sparsity by Worst-Case Quadratic Penalties |

qualCI | Causal Inference with Qualitative and Ordinal Information on Outcomes |

qualityTools | Statistical Methods for Quality Science |

qualV | Qualitative Validation Methods |

Quandl | Quandl Data Connection |

quantchem | Quantitative chemical analysis: calibration and evaluation of results |

QuantifQuantile | Estimation of conditional quantiles using optimal quantization |

quantmod | Quantitative Financial Modelling Framework |

QuantPsyc | Quantitative Psychology Tools |

quantreg | Quantile Regression |

quantregForest | Quantile Regression Forests |

quantregGrowth | Growth charts via regression quantiles |

quantspec | Quantile-based Spectral Analysis of Time Series |

QuasiSeq | Analyzing RNA sequence count tables using quasi-likelihood |

questionr | Functions to make surveys processing easier |

queueing | Analysis of Queueing Networks and Models |

QUIC | Regularized sparse inverse covariance matrix estimation |

quint | Qualitative Interaction Trees |

quipu | Summary charts of micro satellite profiles for a set of biological samples |

qVarSel | Variables Selection for Clustering and Classification |

qvcalc | Quasi variances for factor effects in statistical models |

QZ | Generalized Eigenvalues and QZ Decomposition |

R0 | Estimation of R0 and real-time reproduction number from epidemics |

R1magic | Compressive Sampling: Sparse signal recovery utilities |

R2admb | ADMB to R interface functions |

R2BayesX | Estimate Structured Additive Regression Models with BayesX |

R2Cuba | Multidimensional Numerical Integration |

r2d2 | Bivariate (Two-Dimensional) Confidence Region and Frequency Distribution |

r2dRue | 2d Rain Use Efficience model |

R2G2 | Converting R CRAN outputs into Google Earth |

R2GUESS | Wrapper functions for GUESS |

R2HTML | HTML exportation for R objects |

R2jags | A Package for Running jags from R |

r2lh | R to LaTeX and HTML |

R2MLwiN | Running MLwiN from within R |

R2OpenBUGS | Running OpenBUGS from R |

R2PPT | Simple R Interface to Microsoft PowerPoint using rcom or RDCOMClient |

R2STATS | A GTK GUI for fitting and comparing GLM and GLMM in R |

r2stl | r2stl, R package for visualizing data using a 3D printer |

R2SWF | Convert R Graphics to Flash Animations |

R2wd | Write MS-Word documents from R |

R2WinBUGS | Running WinBUGS and OpenBUGS from R / S-PLUS |

R330 | An R package for Stats 330 |

R4CDISC | Read CDISC data files |

R4CouchDB | A R convenience layer for CouchDB |

R4dfp | 4dfp MRI Image Read and Write Routines |

r4ss | R code for Stock Synthesis |

R6 | Classes with reference semantics |

race | Racing methods for the selection of the best |

RAD | Fit RAD models to biological data |

RADami | R Package for Phylogenetic Analysis of RADseq Data |

RadioSonde | Tools for plotting skew-T diagrams and wind profiles |

RadOnc | Analytical Tools for Radiation Oncology |

rags2ridges | Ridge Estimation of Precision Matrices from High-Dimensional Data |

RAHRS | Data fusion filters for Attitude Heading Reference System (AHRS) with several variants of the Kalman filter and the Mahoney and Madgwick filters |

rainbow | Rainbow plots, bagplots and boxplots for functional data |

raincpc | Obtain and Analyze Rainfall Data from the Climate Prediction Center |

rainfreq | Rainfall Frequency (Design Storm) Estimates from the US National Weather Service |

rAltmetric | Retrieves altmerics data for any published paper from altmetrics.com |

RAM | R for Amplicon-based Metagenomics |

Rambo | The Random Subgraph Model |

RAMpath | Structural Equation Modeling using the reticular action model (RAM) Notation |

ramps | Bayesian Geostatistical Modeling with RAMPS |

randaes | Random number generator based on AES cipher |

random | True random numbers using random.org |

RandomFields | Simulation and Analysis of Random Fields |

randomForest | Breiman and Cutler's random forests for classification and regression |

randomForestSRC | Random Forests for Survival, Regression and Classification (RF-SRC) |

randomGLM | Random General Linear Model Prediction |

randomizationInference | Flexible Randomization-Based Inference |

randomizeBE | Function to create a random list for crossover studies |

randomLCA | Random Effects Latent Class Analysis |

randomNames | Random name generating function and data set |

random.polychor.pa | A Parallel Analysis With Polychoric Correlation Matrices |

randomSurvivalForest | Random Survival Forests |

randomUniformForest | Random Uniform Forests for Classification and Regression |

randtests | Testing randomness in R |

randtoolbox | toolbox for pseudo and quasi random number generation and RNG tests |

RandVar | Implementation of random variables |

rangeMapper | A platform for the study of macroecology of life history traits |

RankAggreg | Weighted rank aggregation |

Rankcluster | Model-based clustering for multivariate partial ranking data |

rankhazard | Rank-hazard plots |

RankResponse | Ranking Responses in a Single Response Question or a Multiple Response Question |

RANN | Fast Nearest Neighbour Search (wraps Arya and Mount's ANN library) |

RAP | Reversal Association Pattern |

RapidPolygonLookup | Polygon lookup using kd trees |

RAPIDR | RAPIDR: Reliable Accurate Prenatal non-Invasive Diagnosis R package |

RApiSerialize | R API Serialization |

RAppArmor | Interfaces to Linux and AppArmor security methods |

rappdirs | Application directories: determine where to save data, caches and logs |

rapport | A report templating system |

rapportools | Miscellaneous (stats) helper functions with sane defaults for reporting |

RArcInfo | Functions to import data from Arc/Info V7.x binary coverages |

rareGE | Testing Gene-Environment Interaction for Rare Genetic Variants |

rareNMtests | Ecological and biogeographical null model tests for comparing rarefaction curves |

Rarity | Calculation of rarity indices for species and assemblages of species |

rARPACK | R wrapper of ARPACK for large scale eigenvalue/vector problems, on both dense and sparse matrices |

RaschSampler | Rasch Sampler |

rasclass | Supervised Raster Image Classification |

raster | raster: Geographic data analysis and modeling |

rasterVis | Visualization methods for the raster package |

rateratio.test | Exact rate ratio test |

raters | An index of inter-rater agreement among a set of raters |

rationalfun | Manipulation of Rational Functions |

RAtmosphere | Standard Atmospheric profiles |

rattle | Graphical user interface for data mining in R |

rAverage | Parameter estimation for the averaging model of Information Integration Theory |

rAvis | Interface to the bird-watching datasets at proyectoavis.com |

rawFasta | Memory efficient handling of FASTA sequence files, a pure R implementation |

rbamtools | An R package for reading and writing BAM (Binary alignment) files |

rbefdata | BEFdata R package |

rbenchmark | Benchmarking routine for R |

rBeta2009 | The Beta Random Number and Dirichlet Random Vector Generating Functions |

rbhl | R interface to the Biodiversity Heritage Library |

RbioRXN | RbioRXN - process Rhea, KEGG, MetaCyc, Unipathway biochemical reaction data |

rbiouml | Functions to interact with BioUML server |

rbison | R interface to the USGS BISON API |

Rbitcoin | R & bitcoin integration |

rbitcoinchartsapi | R Package for the BitCoinCharts.com API |

rbmn | Handling Linear Gaussian Bayesian Networks |

rbounds | Perform Rosenbaum bounds sensitivity tests for matched and unmatched data |

rbugs | Fusing R and OpenBugs and Beyond |

rbundler | Rbundler manages an application's dependencies systematically and repeatedly |

RCA | Relational Class Analysis |

R.cache | Fast and light-weight caching (memoization) of objects and results to speed up computations |

RCALI | Calculation of the Integrated Flow of Particles between Polygons |

Rcapture | Loglinear Models for Capture-Recapture Experiments |

rCarto | This package builds maps with a full cartographic layout |

RCassandra | R/Cassandra interface |

rcbalance | Large, sparse optimal matching with refined covariate balance |

rcdd | rcdd (Computational Geometry) |

rcdk | rcdk - Interface to the CDK Libraries |

rcdklibs | rcdklib - CDK libraries packaged for R |

RCEIM | RCEIM - R Cross Entropy Inspired Method for Optimization |

Rcell | Microscopy Based Cytometry Data Analysis Package |

Rcgmin | Conjugate gradient minimization of nonlinear functions with box constraints |

Rchoice | Discrete Choice (Binary, Poisson and Ordered) Models with Random Parameters |

rChoiceDialogs | rChoiceDialogs collection |

rcicr | Reverse correlation image classification toolbox |

RCircos | Circos 2D Track Plot |

RClimMAWGEN | RClimMAWGEN (R Climate Index Multi-site Auto-regressive Weather GENeretor): a package to generate time series of climate indices from RMAWGEN generations |

rClinicalCodes | R tools for integrating with the www.clinicalcodes.org repository |

Rclusterpp | Linkable C++ clustering |

rCMA | CMA-ES R-to-Java interface |

Rcmdr | R Commander |

RcmdrMisc | R Commander Miscellaneous Functions |

RcmdrPlugin.BCA | Rcmdr Plug-In for Business and Customer Analytics |

RcmdrPlugin.coin | Rcmdr Coin Plug-In |

RcmdrPlugin.depthTools | R commander Depth Tools Plug-In |

RcmdrPlugin.DoE | R Commander Plugin for (industrial) Design of Experiments |

RcmdrPlugin.doex | Rcmdr plugin for Stat 4309 course |

RcmdrPlugin.EACSPIR | Plugin de R-Commander para el manual EACSPIR |

RcmdrPlugin.EBM | Rcmdr Evidence Based Medicine Plug-In package |

RcmdrPlugin.EcoVirtual | Rcmdr EcoVirtual Plugin |

RcmdrPlugin.epack | Rcmdr plugin for time series |

RcmdrPlugin.EZR | R Commander Plug-in for the EZR (Easy R) Package |

RcmdrPlugin.FactoMineR | Graphical User Interface for FactoMineR |

RcmdrPlugin.HH | Rcmdr support for the HH package |

RcmdrPlugin.IPSUR | An IPSUR Plugin for the R Commander |

RcmdrPlugin.KMggplot2 | An Rcmdr Plug-In for Kaplan-Meier Plots and Other Plots by Using the ggplot2 Package |

RcmdrPlugin.lfstat | Rcmdr Plug-In for low flow analysis |

RcmdrPlugin.MA | Graphical User Interface for Conducting Meta-Analyses in R |

RcmdrPlugin.mosaic | Adds menu items to produce mosaic plots and assoc plots to Rcmdr |

RcmdrPlugin.MPAStats | R Commander Plug-in for MPA Statistics |

RcmdrPlugin.NMBU | R Commander Plug-In for Statistics at NMBU |

RcmdrPlugin.orloca | orloca Rcmdr Plug-in |

RcmdrPlugin.plotByGroup | Rcmdr plots by group using lattice |

RcmdrPlugin.pointG | Graphical POINT of view for questionnaire data Rcmdr Plug-In |

RcmdrPlugin.qual | Rcmdr plugin for quality control course |

RcmdrPlugin.ROC | Rcmdr Receiver Operator Characteristic Plug-In package |

RcmdrPlugin.sampling | Tools for sampling in Official Statistical Surveys |

RcmdrPlugin.SCDA | Rcmdr plugin for designing and analyzing single-case experiments |

RcmdrPlugin.seeg | Rcmdr Plugin for seeg |

RcmdrPlugin.SLC | SLC Rcmdr Plug-in |

RcmdrPlugin.SM | Rcmdr Sport Management Plug-In |

RcmdrPlugin.sos | Efficiently search the R help pages |

RcmdrPlugin.StatisticalURV | Statistical URV Rcmdr Plug-In |

RcmdrPlugin.survival | R Commander Plug-in for the survival Package |

RcmdrPlugin.TeachingDemos | Rcmdr Teaching Demos Plug-In |

RcmdrPlugin.temis | Graphical Integrated Text Mining Solution |

RcmdrPlugin.UCA | UCA Rcmdr Plug-in |

Rcolombos | Interface to Colombos Compendia using the exposed REST API |

RColorBrewer | ColorBrewer palettes |

Rcplex | R interface to CPLEX |

RCPmod | Regions of common profiles modelling with mixtures-of-experts |

Rcpp | Seamless R and C++ Integration |

Rcpp11 | R and C++11 |

RcppArmadillo | Rcpp Integration for Armadillo Templated Linear Algebra Library |

RcppBDT | Rcpp bindings for the Boost Date_Time library |

rcppbugs | R binding for cppbugs |

RcppClassic | Deprecated 'classic' Rcpp API |

RcppClassicExamples | Examples using RcppClassic to interface R and C++ |

RcppCNPy | Rcpp bindings for NumPy files |

RcppDE | Global optimization by differential evolution in C++ |

RcppEigen | Rcpp integration for the Eigen templated linear algebra library |

RcppExamples | Examples using Rcpp to interface R and C++ |

RcppGSL | Rcpp integration for GNU GSL vectors and matrices |

RcppMLPACK | Rcpp integration for MLPACK library |

RcppOctave | Seamless Interface to Octave – and Matlab |

RcppParallel | Parallel programming tools for Rcpp |

RcppProgress | An interruptible progress bar with OpenMP support for c++ in R packages |

RcppRedis | Rcpp bindings for Redis using the hiredis library |

RcppRoll | Fast rolling functions through Rcpp and RcppArmadillo |

RcppSMC | Rcpp bindings for Sequential Monte Carlo |

RcppXts | Interface the xts API via Rcpp |

RcppZiggurat | Rcpp integration of different Ziggurat Normal RNG implementations |

Rcsdp | R interface to the CSDP semidefinite programming library |

rCUR | CUR decomposition package |

RCurl | General network (HTTP/FTP/...) client interface for R |

Rd2roxygen | Convert Rd to roxygen documentation and utilities to improve documentation |

rda | Shrunken Centroids Regularized Discriminant Analysis |

rdatamarket | Data access API for DataMarket.com |

rdd | Regression Discontinuity Estimation |

rdetools | Relevant Dimension Estimation (RDE) in Feature Spaces |

R.devices | Unified handling of graphics devices |

RDIDQ | It perform Quality check on data |

RDieHarder | R interface to the dieharder RNG test suite |

Rdistance | Distance sampling analyses |

RDML | Importing real-time thermo cycler (qPCR) data from RDML format files |

rDNA | R Bindings for the Discourse Network Analyzer |

Rdpack | Update and manipulate Rd documentation objects |

rdrobust | Robust data-driven statistical inference in Regression-Discontinuity designs |

rdryad | Dryad API interface |

RDS | Respondent-Driven Sampling |

Rdsm | Threads Environment for R |

RDSTK | An R wrapper for the Data Science Toolkit API |

rDVR | The rDVR package allows you to start stop and save a video server from within R |

ReacTran | Reactive transport modelling in 1D, 2D and 3D |

readbitmap | Simple Unified Interface to Read Bitmap Images (BMP,JPEG,PNG) |

readBrukerFlexData | Reads mass spectrometry data in Bruker *flex format |

reader | A suite of functions to flexibly read data from files |

readMLData | Reading machine learning benchmark data sets from different sources in their original format |

readMzXmlData | Reads Mass Spectrometry Data in mzXML Format |

readODS | Read ODS files and puts them into data frames |

reams | Resampling-Based Adaptive Model Selection |

REBayes | Empirical Bayes Estimation and Inference in R |

rebird | Interface to eBird |

rebmix | The Rebmix Package |

RECA | Relevant Component Analysis for Supervised Distance Metric Learning |

recalls | Access U.S. Federal Government Recall Data |

reccsim | Simulation of Rare Events Case-Control Studies |

ReCiPa | Redundancy Control in Pathways databases |

recluster | Ordination methods for the analysis of beta-diversity indices |

recommenderlab | Lab for Developing and Testing Recommender Algorithms |

recommenderlabBX | Book-Crossing Dataset (BX) for recommenderlab |

recommenderlabJester | Jester Dataset for recommenderlab |

Records | Record Values and Record Times |

recosystem | Recommender System using Matrix Factorization |

RECSO | Robust and Efficient Analysis using Control function approach, of a Secondary Outcome |

REdaS | Companion Package to the Book “R: Einführung durch angewandte Statistik” |

redcapAPI | R interface to REDCap |

REDCapR | Interaction between R and REDCap |

REEMtree | Regression Trees with Random Effects for Longitudinal (Panel) Data |

ref | References for R |

referenceIntervals | Reference Intervals |

RefFreeEWAS | EWAS using reference-Free DNA methylation mixture deconvolution |

refGenome | Gene And Splice Site Annotation Using Annotation Data From Ensembl And UCSC Genome Browsers |

RefManageR | Straightforward BibTeX and BibLaTeX Bibliography Management |

refund | Regression with Functional Data |

refund.wave | Wavelet-Domain Regression with Functional Data |

RegClust | Cluster analysis via regression coefficients |

registry | Registry infrastructure |

reglogit | Simulation-based Regularized Logistic Regression |

regpro | Nonparametric Regression |

regress | Gaussian linear models with linear covariance structure |

regRSM | Random Subspace Method (RSM) for linear regression |

regsubseq | Detect and Test Regular Sequences and Subsequences |

regtest | Regression testing |

rehh | Searching for footprints of selection using Haplotype Homozygosity based tests |

rela | Item Analysis Package with Standard Errors |

relaimpo | Relative importance of regressors in linear models |

relations | Data Structures and Algorithms for Relations |

relax | relax – R Editor for Literate Analysis and lateX |

relaxnet | Relaxation of glmnet models (as in relaxed lasso, Meinshausen 2007) |

relaxo | Relaxed Lasso |

reldist | Relative Distribution Methods |

relevent | Relational Event Models |

Reliability | Functions for estimating parameters in software reliability models |

ReliabilityTheory | Tools for structural reliability analysis |

reliaR | Package for some probability distributions |

relimp | Relative Contribution of Effects in a Regression Model |

relSim | Relative Simulator |

relsurv | Relative survival |

RelValAnalysis | Relative Value Analysis |

remix | Remix your data |

rEMM | Extensible Markov Model (EMM) for Data Stream Clustering in R |

remMap | Regularized Multivariate Regression for Identifying Master Predictors |

remote | Empirical Orthogonal Teleconnections in R |

Renext | Renewal method for extreme values extrapolation |

RenextGUI | GUI for Renext |

rentrez | Entrez in R |

Reol | R interface to the Encyclopedia of Life |

ReorderCluster | Reordering the dendrogram according to the class labels |

RepeatedHighDim | Global tests for expression data of high-dimensional sets of molecular features |

repfdr | Replicability Analysis for Multiple Studies of High Dimension |

replicationInterval | Replication Interval Functions |

repmis | A collection of miscellaneous tools for reproducible research with R |

repolr | Repeated measures proportional odds logistic regression |

ReporteRs | Microsoft Word, Microsoft Powerpoint and HTML documents generation from R |

ReporteRsjars | External jars required for package ReporteRs |

reportr | A general message and error reporting system |

reportRx | Tools for automatically generating reproducible clinical report |

reports | An R package to assist in the workflow of writing academic articles and other reports |

reporttools | Generate LaTeX tables of descriptive statistics |

REPPlab | R interface to EPP-lab, a Java program for exploratory projection pursuit |

represent | Determine the representativity of two multidimensional data sets |

REQS | R/EQS Interface |

resample | Resampling functions |

resemble | Regression and similarity evaluation for memory-based learning in spectral chemometrics |

reshape | Flexibly reshape data |

reshape2 | Flexibly reshape data: a reboot of the reshape package |

reshapeGUI | A GUI for the reshape2 and plyr packages |

ResistorArray | electrical properties of resistor networks |

ResourceSelection | Resource Selection (Probability) Functions for Use-Availability Data |

restlos | Robust estimation of location and scatter |

restorepoint | Debugging with restore points |

retimes | Reaction Time Analysis |

reutils | Talk to the NCBI EUtils |

revealedPrefs | Revealed preferences and microeconomic rationality |

review | Manage Review Logs |

reweight | Adjustment of Survey Respondent Weights |

rexpokit | R wrappers for EXPOKIT; other matrix functions |

Rfacebook | Access to Facebook API via R |

rFDSN | Get Seismic Data from the International Federation of Digital Seismograph Networks |

rFerns | Random ferns classifier |

RFGLS | Rapid Feasible Generalized Least Squares |

rfigshare | an R interface to figshare.com |

R.filesets | Easy handling of and access to files organized in structured directories |

RFinanceYJ | RFinanceYJ |

rfishbase | R Interface to FishBASE |

rfisheries | R interface for fisheries data |

Rfit | Rank Estimation for Linear Models |

RFLPtools | Tools to analyse RFLP data |

RfmriVC | Varying stimulus coefficient fMRI models in R |

RFOC | Graphics for Spherical Distributions and Earthquake Focal Mechanisms |

RForcecom | RForcecom provides the connection to Force.com and Salesforce.com from R |

rfordummies | Code examples to accompany the book "R for Dummies" |

rforensicbatwing | BATWING for calculating forensic trace-suspect match probabilities |

rfPermute | Estimate Permutation p-values for Random Forest Importance Metrics |

RFreak | R/FrEAK interface |

RGA | A Google Analytics API client for R |

rgabriel | Gabriel Multiple Comparison Test and Plot the Confidence Interval on Barplot |

rgam | Robust Generalized Additive Model |

rGammaGamma | Gamma convolutions for methylation array background correction |

rgauges | R wrapper to Gaug.es API |

rgbif | Interface to the Global Biodiversity Information Facility API |

Rgbp | Gaussian, Poisson, and Binomial Hierarchical Modeling |

RGCCA | RGCCA and Sparse GCCA for multi-block data analysis |

rgcvpack | R Interface for GCVPACK Fortran Package |

rgdal | Bindings for the Geospatial Data Abstraction Library |

RGENERATE | RGENERATE A tool for generation random variable time series using the tools of 'vars' or 'RMAWGEN' |

RGenetics | R packages for genetics research |

rgenoud | R version of GENetic Optimization Using Derivatives |

rgeos | Interface to Geometry Engine - Open Source (GEOS) |

rgexf | An R package to build GEXF graph files |

rggobi | Interface between R and GGobi |

RGIFT | Create quizzes in GIFT Format |

rgl | 3D visualization device system (OpenGL) |

Rglpk | R/GNU Linear Programming Kit Interface |

Rgnuplot | R interface for gnuplot |

RGoogleAnalytics | R Wrapper for the Google Analytics API |

RgoogleMaps | Overlays on Google map tiles in R |

rgp | R genetic programming framework |

rgpui | UI for the RGP genetic programming framework |

rgr | The GSC Applied Geochemistry EDA Package |

RGraphics | Data and Functions from the book R Graphics, Second Edition |

rgrs | Functions to make R usage in social sciences easier (in french) |

RGtk2 | R bindings for Gtk 2.8.0 and above |

RGtk2Extras | Data frame editor and dialog making wrapper for RGtk2 |

RH2 | DBI/RJDBC interface to h2 Database |

rHealthDataGov | Retrieve data sets from the HealthData.gov data API |

Rhh | Calculating multilocus heterozygosity and heterozygosity-heterozygosity correlation |

RHive | R and Hive |

rhosp | Side effect risks in hospital : simulation and estimation |

Rhpc | An R package for High-Performance Computing |

RhpcBLASctl | Control the number of threads on BLAS for R |

rHpcc | Interface between HPCC and R |

RHRV | Heart rate variability analysis of ECG data |

RHT | Regularized Hotelling's T-square Test for Pathway (Gene Set) Analysis |

R.huge | Methods for accessing huge amounts of data [DEPRECATED] |

ri | ri: R package for performing randomization-based inference for experiments |

RI2by2 | Randomization inference for treatment effects on a binary outcome |

rich | Computes and compares species richnesses |

ridge | Ridge Regression with automatic selection of the penalty parameter |

RidgeFusion | R Package for Ridge Fusion in Statistical Learning |

Ridit | Ridit Analysis (An extension of the Kruskal-Wallis Test.) |

RIFS | Random Iterated Function System (RIFS) |

RIGHT | R Interactive Graphics via HTml |

RImageJROI | Read ImageJ Region of Interest (ROI) files |

RImpala | R and Impala |

rinat | Access iNaturalist data through APIs |

rindex | Indexing for R |

ringbuffer | Ring buffer (circular buffer) data structure |

ringscale | Ringscale |

RInside | C++ classes to embed R in C++ applications |

RInSp | R Individual Specialization (RInSp) package |

rio | A Swiss-army knife for data file I/O |

rioja | Analysis of Quaternary Science Data |

ripa | R Image Processing and Analysis |

riskRegression | Risk regression for survival analysis |

risksetROC | Riskset ROC curve estimation from censored survival data |

RISmed | Download content from NCBI databases |

Ritc | Isothermal Titration Calorimetry (ITC) Data Analysis |

rite | The Right Editor to Write R |

RItools | Randomization inference tools |

riv | Robust instrumental variables estimator |

riverplot | Sankey or ribbon plots |

rivervis | River Visualisation Tool |

Rivivc | In vitro in vivo correlation linear level A |

RJaCGH | Reversible Jump MCMC for the analysis of CGH arrays |

rjags | Bayesian graphical models using MCMC |

rJava | Low-level R to Java interface |

rJavax | rJava extensions |

RJDBC | Provides access to databases through the JDBC interface |

rje | Miscellaneous useful functions |

rJPSGCS | R-interface to gene drop Java Programs for Statistical Genetics and Computational Statistics (JPSGCS) |

Rjpstatdb | R interface of the Gateway to Advanced and User-friendly Statistics Service |

RJSDMX | R interface to SDMX Web Services |

rjson | JSON for R |

RJSONIO | Serialize R objects to JSON, JavaScript Object Notation |

rjstat | Read and write JSON-stat data sets |

rJython | R interface to Python via Jython |

RKEA | R/KEA interface |

rknn | Random KNN Classification and Regression |

rkt | Mann-Kendall test, Seasonal and Regional Kendall Tests |

rkvo | Read Key/Value Pair Observations |

Rlab | Functions and Datasets Required for ST370 class |

Rlabkey | Data exchange between R and LabKey Server |

rLakeAnalyzer | Package for the analysis of lake physics |

rlecuyer | R interface to RNG with multiple streams |

rLindo | R Interface to LINDO API |

rlist | A set of tools for working with list objects |

rlme | Rank-based Estimation and Prediction in Random Effects Nested Models |

RLRsim | Exact (Restricted) Likelihood Ratio tests for mixed and additive models |

RM2 | Revenue Management and Pricing Package |

rmaf | Refined Moving Average Filter |

RMallow | Fit Multi-Modal Mallows' Models to ranking data |

Rmalschains | Continuous Optimization using Memetic Algorithms with Local Search Chains (MA-LS-Chains) in R |

RMark | R Code for MARK Analysis |

rmarkdown | Dynamic Documents for R |

rmatio | Read and write matlab files |

R.matlab | Read and write of MAT files together with R-to-MATLAB connectivity |

RMAWGEN | RMAWGEN (R Multi-site Auto-regressive Weather GENerator), a package to generate daily time series of precipitation and temperature from monthly mean values |

RMC | Functions for fitting Markov models |

RMediation | An R Package for Mediation Analysis Confidence Intervals |

rmeta | Meta-analysis |

rmetasim | An individual-based population genetic simulation environment |

R.methodsS3 | Utility function for defining S3 methods |

rmgarch | Multivariate GARCH models |

rminer | Simpler use of data mining methods (e.g. NN and SVM) in classification and regression |

Rmisc | Rmisc: Ryan Miscellaneous |

Rmixmod | An interface for MIXMOD |

RmixmodCombi | Combining Mixture Components for Clustering |

rmngb | rmngb Miscellaneous |

RMOA | Connect R with MOA for Massive Online Analysis |

RMOAjars | External jars required for package RMOA |

RMongo | MongoDB Client for R |

rmongodb | R-MongoDB driver |

Rmosek | The R-to-MOSEK Optimization Interface |

rmp | Rounded Mixture Package. Performs probability mass function estimation with Dirichlet process mixtures of rounded kernels |

Rmpfr | R MPFR - Multiple Precision Floating-Point Reliable |

Rmpi | Interface (Wrapper) to MPI (Message-Passing Interface) |

RMRAINGEN | RMRAINGEN (R Multi-site RAINfall GENeretor): a package to generate daily time series of rainfall from monthly mean values |

rms | Regression Modeling Strategies |

rms.gof | Root-mean-square goodness-of-fit test for simple null hypothesis |

RMTstat | Distributions, Statistics and Tests derived from Random Matrix Theory |

RMySQL | R interface to the MySQL database |

rnaseqWrapper | Wrapper for several R packages and scripts to automate RNA-seq analysis |

RnavGraph | Using graphs as a navigational infrastructure |

RnavGraphImageData | Some image data used in the RnavGraph package demos |

rnbn | Access NBN data |

RNCBIEUtilsLibs | EUtils libraries for use in the R environment |

RNCEP | Obtain, organize, and visualize NCEP weather data |

RND | Risk Neutral Density Extraction Package |

rneos | rneos: XML-RPC Interface to NEOS |

RNetCDF | R Interface to NetCDF Datasets |

RNeXML | Implement semantically rich I/O for NeXML format |

rngtools | Utility functions for working with Random Number Generators |

rngWELL | toolbox for WELL random number generators |

rngwell19937 | WELL19937a random number generator implemented with 53 bit output |

Rniftilib | Rniftilib - R Interface to NIFTICLIB (V2.0.0: 2010-07-20) |

RNiftyReg | Medical image registration using the NiftyReg library |

rnoaa | NOAA climate data from R |

rNOMADS | An interface to the NOAA Operational Model Archive and Distribution System |

rnrfa | UK National River Flow Archive data from R |

ROAuth | R interface for OAuth |

RobAStBase | Robust Asymptotic Statistics |

robCompositions | Robust Estimation for Compositional Data |

robcor | Robust Correlations |

robeth | R functions for robust statistics |

robfilter | Robust Time Series Filters |

RobLox | Optimally robust influence curves and estimators for location and scale |

RobLoxBioC | Infinitesimally robust estimators for preprocessing omics data |

RobPer | Robust periodogram methods for irregularly sampled time series and robust periodicity detection methods |

RobRex | Optimally robust influence curves for regression and scale |

RobRSVD | Robust Regularized Singular Value Decomposition |

RObsDat | Store your observations: R-Interface to the Observations Data Model from QUASHI |

robumeta | Robust variance meta-regression |

robust | Robust Library |

RobustAFT | Truncated Maximum Likelihood fit and Robust Accelerated Failure Time regression for Gaussian and log-Weibull case |

robustbase | Basic Robust Statistics |

robustDA | Robust Mixture Discriminant Analysis |

robustfa | An Object Oriented Solution for Robust Factor Analysis |

robustgam | Robust Estimation for Generalized Additive Models |

robustHD | Robust methods for high-dimensional data |

robustlmm | Robust Linear Mixed Effects Models |

robustloggamma | Robust estimation of the generalized log gamma model |

RobustRankAggreg | Methods for robust rank aggregation |

robustreg | Robust Regression Functions |

robustvarComp | Robust Estimation of Variance Component Models |

robustX | eXperimental Functionality for Robust Statistics |

ROC632 | Construction of diagnostic or prognostic scoring system and internal validation of its discriminative capacities based on ROC curve and 0.633+ boostrap resampling |

rocc | ROC based classification |

rockchalk | Regression Estimation and Presentation |

RockFab | Rock fabric and strain analysis tools |

rococo | RObust rank COrrelation COefficient and test |

ROCR | Visualizing the performance of scoring classifiers |

ROCt | Time-dependent ROC curve estimation and adaptation to the relative survival context |

ROCwoGS | Non-parametric estimation of ROC curves without Gold Standard Test |

RODBC | ODBC Database Access |

RODBCext | Parameterized queries extension for RODBC |

RODM | R interface to Oracle Data Mining |

ROI | R Optimization Infrastructure |

ROI.plugin.glpk | ROI-plugin GLPK |

ROI.plugin.quadprog | ROI-plugin quadprog |

ROI.plugin.symphony | ROI-plugin symphony |

R.oo | R object-oriented programming with or without references |

Rook | Rook - a web server interface for R |

RootsExtremaInflections | Finds roots, extrema and inflection points of a curve |

rootSolve | Nonlinear root finding, equilibrium and steady-state analysis of ordinary differential equations |

ROptEst | Optimally robust estimation |

ROptEstOld | Optimally robust estimation - old version |

ROptRegTS | Optimally robust estimation for regression-type models |

ror | Robust Ordinal Regression MCDA library |

ROracle | OCI based Oracle database interface for R |

rorutadis | Robust Ordinal Regression UTADIS |

ROSE | ROSE: Random Over-Sampling Examples |

rotations | Tools for Working with Rotation Data |

Rothermel | Rothermel fire spread model for R |

RoughSets | Data Analysis Using Rough Set and Fuzzy Rough Set Theories |

rowr | Row-based functions for R objects |

roxygen2 | In-source documentation for R |

royston | Royston's H Test: Multivariate Normality Test |

rpanel | Simple interactive controls for R using the tcltk library |

rpart | Recursive Partitioning and Regression Trees |

rpartitions | Code for integer partitioning |

rpart.plot | Plot rpart models. An enhanced version of plot.rpart |

rpartScore | Classification trees for ordinal responses |

rpart.utils | Tools for parsing and manipulating rpart objects, including generating machine readable rules |

RPCLR | RPCLR (Random-Penalized Conditional Logistic Regression) |

Rpdb | Read, write, visualize and manipulate PDB files |

rpf | Response Probability Functions |

rpg | Easy interface to advanced PostgreSQL features |

rphast | R interface to PHAST software for comparative genomics |

Rphylip | An R interface for PHYLIP |

rPlant | R interface to the iPlant Discovery Environment |

rplexos | Read and analyze PLEXOS solutions from R |

rplos | Interface to PLoS Journals search API |

rplotengine | R as a plotting engine |

RPMG | Graphical User Interface (GUI) for interactive R analysis sessions |

RPMM | Recursively Partitioned Mixture Model |

Rpoppler | PDF tools based on Poppler |

rportfolios | Random portfolio generation |

RPostgreSQL | R interface to the PostgreSQL database system |

RPPanalyzer | Reads, annotates, and normalizes reverse phase protein array data |

rPref | Preferences and Skyline Computation in R |

rprintf | Adaptive builder for formatted strings |

RProtoBuf | R Interface to the Protocol Buffers API |

rpsychi | Statistics for psychiatric research |

rpubchem | rpubchem - Interface to the PubChem Collection |

RPublica | ProPublica API Client |

rpud | R functions for computation on GPU |

RPushbullet | R interface to the wonderful Pushbullet service |

RPyGeo | ArcGIS Geoprocessing in R via Python |

rPython | Package allowing R to call Python |

RQDA | R-based Qualitative Data Analysis |

Rquake | Seismic Hypocenter Determination |

RQuantLib | R interface to the QuantLib library |

Rramas | Matrix population models |

rrBLUP | Ridge regression and other kernels for genomic selection |

rrBlupMethod6 | Re-parametrization of RR-BLUP to allow for a fixed residual variance |

rrcov | Scalable Robust Estimators with High Breakdown Point |

rrcovHD | Robust multivariate Methods for High Dimensional Data |

rrcovNA | Scalable Robust Estimators with High Breakdown Point for Incomplete Data |

Rrdrand | Generate Physical Random Numbers on Intel CPUs with the RdRand instruction |

rredis | Redis client for R |

RRF | Regularized Random Forest |

rriskDistributions | Fitting distributions to given data or known quantiles |

rrlda | Robust Regularized Linear Discriminant Analysis |

RRreg | Correlation and Regression Analyses of Randomized Response Designs |

R.rsp | Dynamic generation of scientific reports |

rrules | Generic rule engine for R |

RSA | Response surface analysis |

RSADBE | Data related to the book "R Statistical Application Development by Example" |

rsae | Robust Small Area Estimation |

RSAGA | SAGA Geoprocessing and Terrain Analysis in R |

RSAP | SAP Netweaver RFC connector for R |

rSCA | An R Package for Stepwise Cluster Analysis |

RSclient | Client for Rserve |

rscproxy | statconn: provides portable C-style interface to R (StatConnector) |

RSDA | RSDA - R to Symbolic Data Analysis |

rsdepth | Ray Shooting Depth (i.e. RS Depth) functions for bivariate analysis |

rsdmx | Tools for reading SDMX data and metadata |

RSeed | borenstein analysis |

rseedcalc | Estimating the proportion of genetically modified stacked seeds in seedlots via multinomial group testing |

RSEIS | Seismic Time Series Analysis Tools |

RSelenium | R bindings for Selenium WebDriver |

rsem | Robust Structural Equation Modeling with Missing Data and Auxiliary Variables |

Rserve | Binary R server |

rSFA | Slow Feature Analysis in R |

rsgcc | Gini methodology-based correlation and clustering analysis of microarray and RNA-Seq gene expression data |

RSGHB | Functions for Hierarchical Bayesian Estimation: A Flexible Approach |

RSiena | Siena - Simulation Investigation for Empirical Network Analysis |

rsig | Robust Signature Selection for Survival Outcomes |

RsimMosaic | R Simple IMage Mosaic creation library |

RSiteCatalyst | R Client for Adobe Analytics API v1.4 |

RSKC | Robust sparse K-means |

rsm | Response-surface analysis |

RSNNS | Neural Networks in R using the Stuttgart Neural Network Simulator (SNNS) |

rsnps | Get SNP (Single-Nucleotide Polymorphism) data on the web |

RSNPset | RSNPset |

RSocrata | Download Socrata datasets as R data frames |

RSofia | Port of sofia-ml (http://code.google.com/p/sofia-ml/) to R |

Rsolnp | General Non-linear Optimization |

Rsomoclu | R package for somoclu |

rspa | Adapt numerical records to fit (in)equality restrictions with the Successive Projection Algorithm |

rspear | Calculate SPEARpesticide in R (http://www.systemecology.eu/SPEAR/index.php) |

RSpincalc | Package for converting between attitude representations: DCM, Euler angles, Quaternions, and Euler vectors |

rsprng | R interface to SPRNG (Scalable Parallel Random Number Generators) |

RSQLite | SQLite interface for R |

RSQLite.extfuns | Math and String Extension Functions for RSQLite |

Rssa | A collection of methods for singular spectrum analysis |

rstiefel | Random orthonormal matrix generation on the Stiefel manifold |

RStorm | Simulate and Develop Streaming Processing in [R] |

rstream | Streams of random numbers |

rstudioapi | Safely access the RStudio API |

rsubgroup | Subgroup Discovery and Analytics |

Rsundials | Suite of Nonlinear Differential Algebraic Equations Solvers in R |

rsunlight | Interface to Sunlight Foundation APIs |

RSurvey | Analysis of Spatially Distributed Data |

RSvgDevice | An R SVG graphics device |

RSVGTipsDevice | An R SVG graphics device with dynamic tips and hyperlinks |

Rsymphony | Symphony in R |

rSymPy | R interface to SymPy computer algebra system |

rtape | Manage and manipulate large collections of R objects stored as tape-like files |

RTConnect | Tools for analyzing sales report files of iTunes Connect |

RTDE | Robust Tail Dependence Estimation |

rtematres | The rtematres API package |

rTensor | Tools for tensor analysis and decomposition |

RTextTools | Automatic Text Classification via Supervised Learning |

RTextureMetrics | Functions for calculation of texture metrics for Grey Level Co-occurrence Matrices |

rtf | Rich Text Format (RTF) Output |

rtfbs | R Transcription Factor Binding Site identification tool |

rtiff | A tiff reader for R |

RTOMO | Visualization for seismic tomography |

rtop | Interpolation of data with variable spatial support |

RTriangle | Triangle - A 2D Quality Mesh Generator and Delaunay Triangulator |

rts | Raster time series analysis |

Rtsne | T-distributed Stochastic Neighbor Embedding using Barnes-Hut implementation |

Rttf2pt1 | Package for ttf2pt1 program |

rtype | A strong type system for R |

Ruchardet | R package to detect character encoding |

rucm | Implementation of Unobserved Components Model (UCM) in R |

rugarch | Univariate GARCH models |

RUnit | R Unit test framework |

Runiversal | Runiversal - Package for converting R objects to Java variables and XML |

runjags | Interface utilities, parallel computing methods and additional distributions for MCMC models in JAGS |

Runuran | R interface to the UNU.RAN random variate generators |

RunuranGUI | A GUI for the UNU.RAN random variate generators |

R.utils | Various programming utilities |

rv | Simulation-based random variable objects |

RVAideMemoire | Diverse basic statistical and graphical functions |

rvalues | Computation of r-values for ranking in high-dimensional settings |

Rvcg | Manipulations of triangular meshes (smoothing, quadric edge collapse decimation, im- and export of various mesh file-formats, cleaning, etc.) based on the VCGLIB API |

rvertnet | Search VertNet database from R |

rvgtest | Tools for Analyzing Non-Uniform Pseudo-Random Variate Generators |

rvHPDT | Calling haplotype-based and variant-based pedigree disequilibrium test for rare variants in pedigrees |

RVideoPoker | Play Video Poker with R |

Rvmmin | Variable metric nonlinear function minimization with bounds constraints |

RVowpalWabbit | R interface to the Vowpal Wabbit |

RVsharing | RVsharing |

rvTDT | population control weighted rare-variants TDT |

RVtests | Rare Variant Tests |

Rwave | Time-Frequency analysis of 1-D signals |

rWBclimate | A package for accessing World Bank climate data |

RWBP | Detects spatial outliers using a Random Walk on Bipartite Graph |

RWeather | R wrapper around the Yahoo! Weather, Google Weather and NOAA APIs |

RWebLogo | plotting custom sequence logos |

RWeka | R/Weka interface |

RWekajars | R/Weka interface jars |

RWiener | Wiener process distribution functions |

RWinEdt | R Interface to WinEdt |

Rwinsteps | Running Winsteps in R |

rworldmap | Mapping global data, vector and raster |

rworldxtra | Country boundaries at high resolution |

rwt | Rice Wavelet Toolbox wrapper |

RxCEcolInf | R x C Ecological Inference With Optional Incorporation of Survey Information |

RXKCD | Get XKCD comic from R |

RXMCDA | An XMCDA parser for R |

RXshrink | Maximum Likelihood Shrinkage via Generalized Ridge or Least Angle Regression |

Ryacas | R interface to the yacas computer algebra system |

RYoudaoTranslate | R package provide functions to translate English words into Chinese |

ryouready | Companion to the 'R your ready?' book |

rYoutheria | Access to the YouTheria mammal trait database |

rysgran | Grain size analysis, textural classifications and distribution of unconsolidated sediments |

Rz | GUI Tool for Data Management like SPSS or Stata |

rzmq | R binding for zmq (http://www.zeromq.org/) |

s20x | Stats 20x |

s2dverification | Set of common tools for model diagnostics |

s4vd | Biclustering via sparse singular value decomposition incorporating stability selection |

sac | Semiparametric Analysis of Changepoint |

sads | Maximum Likelihood Models for Species Abundance Distributions |

sae | Small Area Estimation |

saemix | Stochastic Approximation Expectation Maximization (SAEM) algorithm |

saery | Small Area Estimation for Rao and Yu Model |

SAFD | Statistical Analysis of Fuzzy Data |

safeBinaryRegression | Safe Binary Regression |

SAM | Sparse Additive Modelling |

SamplerCompare | A framework for comparing the performance of MCMC samplers |

sampleSelection | Sample Selection Models |

samplesize | Sample size calculation for various t-Tests and Wilcoxon-Test |

Sample.Size | Sample size calculation |

samplesize4surveys | Sample size calculations for complex surveys |

SampleSizeMeans | Sample size calculations for normal means |

SampleSizeProportions | Calculating sample size requirements when estimating the difference between two binomial proportions |

sampling | Survey Sampling |

samplingbook | Survey Sampling Procedures |

samplingEstimates | Sampling Estimates |

SamplingStrata | Optimal stratification of sampling frames for multipurpose sampling surveys |

samplingVarEst | Sampling Variance Estimation |

sampSurf | Sampling Surface Simulation for Areal Sampling Methods |

samr | SAM: Significance Analysis of Microarrays |

SAMURAI | Sensitivity Analysis of a Meta-analysis with Unpublished but Registered Analytical Investigations |

sand | Statistical Analysis of Network Data with R |

sandwich | Robust Covariance Matrix Estimators |

sanitizers | C/C++ source code to trigger Address and Undefined Behaviour Sanitizers |

sanon | Stratified Analysis with Nonparametric covariable adjustment |

sapa | Spectral Analysis for Physical Applications |

SAPP | Statistical Analysis of Point Processes |

sas7bdat | SAS Database Reader (experimental) |

SAScii | Import ASCII files directly into R using only a SAS input script |

SASmixed | Data sets from "SAS System for Mixed Models" |

SASPECT | Significant AnalysiS of PEptide CounTs |

SASxport | Read and Write SAS XPORT Files |

SAVE | Bayesian emulation, calibration and validation of computer models |

saves | Fast load variables |

saws | Small-Sample Adjustments for Wald tests Using Sandwich Estimators |

sBF | Smooth Backfitting |

sbgcop | Semiparametric Bayesian Gaussian copula estimation and imputation |

sbioPN | sbioPN: Simulation of deterministic and stochastic spatial biochemical reaction networks using Petri Nets |

SBRect | Detecting structural breaks using rectangle covering (non-parametric method) |

SBSA | Simplified Bayesian Sensitivity Analysis |

sca | Simple Component Analysis |

scagnostics | Compute scagnostics - scatterplot diagnostics |

scales | Scale functions for graphics |

scalreg | Scaled sparse linear regression |

scam | Shape constrained additive models |

scape | Statistical Catch-at-Age Plotting Environment |

scar | Shape-Constrained Additive Regression: a Maximum Likelihood Approach |

scaRabee | Optimization Toolkit for Pharmacokinetic-Pharmacodynamic Models |

scatterplot3d | 3D Scatter Plot |

SCBmeanfd | Simultaneous Confidence Bands for the Mean of Functional Data |

SCEPtER | Stellar CharactEristics Pisa Estimation gRid |

SCEPtERextras | Additional grids for SCEPtER |

SCGLR | Supervised Component Generalized Linear Regression (SCGLR) |

scholar | Analyse citation data from Google Scholar |

schoolmath | Functions and datasets for math used in school |

schoRsch | Tools for analyzing factorial experiments |

schwartz97 | A package on the Schwartz two-factor commodity model |

SCI | Standardized Climate Indices such as SPI, SRI or SPEI |

scidb | An R interface to SciDB |

SciencesPo | Tools for analyzing political behaviour data |

scio | Sparse Column-wise Inverse Operator |

sciplot | Scientific Graphing Functions for Factorial Designs |

SciViews | SciViews GUI API - Main package |

SCMA | Single-Case Meta-Analysis |

SCORER2 | SCORER 2.0: an algorithm for distinguishing parallel dimeric and trimeric coiled-coil sequences |

scoring | Proper scoring rules |

ScottKnott | The ScottKnott Clustering Algorithm |

scout | Implements the Scout method for Covariance-Regularized Regression |

SCperf | Supply Chain Perform |

ScrabbleScore | Calculates Scrabble score for strings |

scrapeR | Tools for Scraping Data from HTML and XML Documents |

ScreenClean | Screen and clean variable selection procedures |

scrime | Analysis of High-Dimensional Categorical Data such as SNP Data |

scriptests | Transcript-based unit tests that are easy to create and maintain |

SCRT | Single-Case Randomization Tests |

scrypt | scrypt key derivation functions for R |

scuba | Scuba diving calculations and decompression models |

SCVA | Single-Case Visual Analysis |

sda | Shrinkage Discriminant Analysis and CAT Score Variable Selection |

SDaA | Sampling: Design and Analysis |

SDBP | Calculate the third-order accurate Unbiased P-values via Speedy double bootstrap method |

sdcMicro | Statistical Disclosure Control methods for anonymization of microdata and risk estimation |

sdcMicroGUI | Graphical user interface for package sdcMicro |

sdcTable | Methods for statistical disclosure control in tabular data |

SDD | Serial Dependence Diagrams |

sddpack | Semidiscrete Decomposition |

sde | Simulation and Inference for Stochastic Differential Equations |

sdef | Synthesizing List of Differentially Expressed Features |

SDMTools | Species Distribution Modelling Tools: Tools for processing data associated with species distribution modelling exercises |

sdmvspecies | Create virtual species for species distribution modelling |

sdnet | Soft Discretization-based Bayesian Network Inference |

sdprisk | Measures of Risk for the Compound Poisson Risk Process with Diffusion |

sdtoolkit | Scenario Discovery Tools to Support Robust Decision Making |

seacarb | seawater carbonate chemistry with R |

sealasso | Standard Error Adjusted Adaptive Lasso |

SearchTrees | Spatial Search Trees |

seas | Seasonal analysis and graphics, especially for climatology |

season | Seasonal analysis of health data |

seasonal | R interface to X-13ARIMA-SEATS |

seawaveQ | U.S. Geological Survey seawaveQ model |

SEchart | SEchart |

SECP | Statistical Estimation of Cluster Parameters (SECP) |

secr | Spatially explicit capture-recapture |

secrdesign | Sampling Design for Spatially Explicit Capture–Recapture |

seedy | Simulation of Evolutionary and Epidemiological Dynamics |

seeg | Statistics for Environmental Sciences, Engineering, and Geography |

seem | Simulation of Ecological and Environmental Models |

SEER2R | reading and writing SEER*STAT data files |

SEERaBomb | SEER Setup and Use with A-Bomb Data |

seewave | Sound analysis and synthesis |

seg | A set of tools for measuring spatial segregation |

segmented | Segmented relationships in regression models with breakpoints/changepoints estimation |

Segmentor3IsBack | A Fast Segmentation Algorithm |

SE.IGE | Standard errors of estimated genetic parametes |

Sejong | KoNLP static dictionaries and Sejong project resources |

SEL | Semiparametric elicitation |

selectiongain | A tool for calculation and optimization of the expected gain from multi-stage selection |

selectMeta | Estimation of Weight Functions in Meta Analysis |

selectr | Translate CSS Selectors to XPath Expressions |

SeleMix | Selective Editing via Mixture models |

SelvarMix | Regularization for variable selection in model-based clustering and discriminant analysis |

sem | Structural Equation Models |

semdiag | Structural equation modeling diagnostics |

semGOF | Goodness-of-fit indexes for structural equation models |

semiArtificial | Generator of semi-artificial data |

SemiCompRisks | Parametric and semi-parametric analyses of semi-competing risks data |

SEMID | Identifiability of linear structural equation models |

SemiMarkov | Multi-States Semi-Markov Models |

SemiPar | Semiparametic Regression |

SemiParBIVProbit | Semiparametric Bivariate Probit Modelling |

SemiParSampleSel | Semiparametric Sample Selection Modelling with Continuous Response |

semisupKernelPCA | Kernel PCA projection, and semi-supervised variant |

SEMModComp | Model Comparisons for SEM |

semPlot | Path diagrams and visual analysis of various SEM packages' output |

semPLS | Structural Equation Modeling Using Partial Least Squares |

semTools | Useful tools for structural equation modeling |

sendmailR | send email using R |

sendplot | Tool for sending interactive plots with tool-tip content |

sensitivity | Sensitivity Analysis |

SensitivityCaseControl | Sensitivity Analysis for Case-Control Studies |

sensitivitymv | Sensitivity Analysis in Observational Studies |

sensitivitymw | Sensitivity analysis using weighted M-statistics |

SensoMineR | Sensory data analysis with R |

sensory | Simultaneous Model-Based Clustering and Imputation via a Progressive Expectation-Maximization (PEM) algorithm |

sensR | Thurstonian models for sensory discrimination |

SenSrivastava | Datasets from Sen & Srivastava |

separationplot | Separation Plots |

seqCBS | CN Profiling using Sequencing and CBS |

seqDesign | Simulation and group sequential monitoring of randomized multi-arm two-stage Phase IIb/III treatment efficacy trials with time-to-event endpoints |

SeqFeatR | Calculates possible epitopes and co-mutations |

SeqGrapheR | Simple GUI for graph based visualization of cluster of DNA sequence reads |

seqinr | Biological Sequences Retrieval and Analysis |

seqMeta | An R package for meta-analyzing region-based tests of rare DNA variants |

seqminer | Efficiently Read Sequence Data (VCF format, BCF format and METAL format) into R |

seqmon | Sequential Monitoring of Clinical Trials |

seqPERM | Generates a permutation matrix based upon a sequence |

seqRFLP | Simulation and visualization of restriction enzyme cutting pattern from DNA sequences |

sequences | Generic and biological sequences |

Sequential | Exact Sequential Analysis for Poisson Data |

sequenza | Analysis and visualization of tumor genome sequencing data |

seriation | Infrastructure for seriation |

servr | A simple HTTP server in R |

sesem | Spatially explicit structural equation modeling |

SesIndexCreatoR | Computation and visualization of socioeconomic indices and categories distributions |

session | Functions for interacting with, saving and restoring R sessions |

SetMethods | SetMethods: A Package Companion to "Set-Theoretic Methods for the Social Sciences" |

setRNG | Set (Normal) Random Number Generator and Seed |

sets | Sets, Generalized Sets, Customizable Sets and Intervals |

setwidth | Set the value of options("width") on terminal emulators |

severity | Mayo's Post-data Severity Evaluation |

sExtinct | Calculates the historic date of extinction given a series of sighting events |

sfa | Stochastic Frontier Analysis |

sfsmisc | Utilities from Seminar fuer Statistik ETH Zurich |

sft | Functions for Systems Factorial Technology Analysis of Data |

SGCS | Spatial Graph based Clustering Summaries for spatial point patterns |

sgeostat | An Object-oriented Framework for Geostatistical Modeling in S+ |

SGL | Fit a GLM (or cox model) with a combination of lasso and group lasso regularization |

sglasso | Lasso method for RCON(V,E) models |

sglOptim | Sparse group lasso generic optimizer |

sglr | An R package for power and boundary calculations in pre-licensure vaccine trials using a sequential generalized likelihood ratio test |

sgof | Multiple hypothesis testing |

SGP | An R Package for the Calculation and Visualization of Student Growth Percentiles & Percentile Growth Trajectories |

sGPCA | Sparse Generalized Principal Component Analysis |

SGPdata | Exemplar data sets for SGP analyses |

sgr | Sample Generation by Replacement |

shape | Functions for plotting graphical shapes, colors |

shapefiles | Read and Write ESRI Shapefiles |

shapes | Statistical shape analysis |

SharpeR | Statistical significance of Sharpe ratio |

sharpshootR | A collection of functions to support soil survey |

sharx | Models and Data Sets for the Study of Species-Area Relationships |

shiny | Web Application Framework for R |

shinyAce | Ace editor bindings for Shiny |

shinyBS | Twitter Bootstrap Components for Shiny |

shinyFiles | A server-side file system viewer for shiny |

shinyRGL | Shiny Wrappers for RGL |

SHIP | SHrinkage covariance Incorporating Prior knowledge |

shopifyr | An R Interface to the Shopify API |

shotGroups | Analyze shot group data |

showtext | Enable (any) R Graphics Device to Show Text Using System Fonts |

shp2graph | Convert a SpatialLinesDataFrame object to a "igraph-class" object |

shrink | Global, Parameterwise, and Joint Post-Estimation Shrinkage |

ShrinkCovMat | Shrinkage Covariance Matrix Estimators |

shuffle | The shuffle estimator for explainable variance |

siar | Stable Isotope Analysis in R |

sideChannelAttack | Side Channel Attack |

sidier | SIDIER: Substitution and Indel Distances to Infer Evolutionary Relationships |

sievetest | Sieve test reporting functions |

sig | Print function signatures |

sigclust | Statistical Significance of Clustering |

signal | Signal processing |

signal.hsmm | Predict Presence of Signal Peptides |

sigora | SIGNATURE OVERREPRESENTATION ANALYSIS |

SigTree | Identify and visualize significantly responsive branches in a phylogenetic tree |

SII | Calculate ANSI S3.5-1997 Speech Intelligibility Index |

simba | A Collection of functions for similarity analysis of vegetation data |

simboot | Simultaneous inference for diversity indices |

SimComp | Simultaneous Comparisons for Multiple Endpoints |

SimCorMultRes | Simulates Correlated Multinomial Responses |

simctest | Safe implementation of Monte Carlo tests |

Sim.DiffProc | Simulation of Diffusion Processes |

simecol | Simulation of ecological (and other) dynamic systems |

simex | SIMEX- and MCSIMEX-Algorithm for measurement error models |

simexaft | simexaft |

simFrame | Simulation framework |

Simile | Interact with Simile models |

SIMMS | Subnetwork Integration for Multi-Modal Signatures |

simMSM | Simulation of event histories based on nonlinear hazard rate functions and potentially nonlinear covariate effects |

simone | Statistical Inference for MOdular NEtworks (SIMoNe) |

simPH | Tools for simulating and plotting quantities of interest estimated from Cox Proportional Hazards models |

simpleboot | Simple Bootstrap Routines |

SimpleTable | Bayesian Inference and Sensitivity Analysis for Causal Effects from 2 x 2 and 2 x 2 x K Tables in the Presence of Unmeasured Confounding |

simplexreg | Regression Analysis of Proportional Data Using Simplex Distribution |

SimplicialCubature | Numerical integration of functions over simplices |

Simpsons | Detecting Simpson's Paradox |

SimRAD | Simulations to predict the number of loci expected in RAD and GBS approaches |

simsalapar | Tools for Simulation Studies in Parallel with R |

simsem | SIMulated Structural Equation Modeling |

SimSeq | Nonparametric Simulation of RNA-Seq Data |

simSummary | Simulation summary |

simTool | An easy to learn framework to conduct simulation studies which disengages the researcher from administrative source code |

SimuChemPC | Simulation process of 4 selection methods in predicting chemical potent compounds |

SimultAnR | Correspondence and Simultaneous Analysis |

SIN | A SINful Approach to Selection of Gaussian Graphical Markov Models |

SINGLE | Estimate sparse dynamic graphs using the Smooth Incremental Graphical Lasso Estimation (SINGLE) algorithm |

siplab | Spatial individual-plant modelling |

sirad | Functions for calculating daily solar radiation and evapotranspiration |

siRSM | Single-Index Response Surface Models |

sirt | Supplementary Item Response Theory Models |

SIS | Sure Independence Screening |

sitar | SITAR growth curve analysis |

sitools | Format a number to a string with SI prefix |

SixSigma | Six Sigma Tools for Quality and Process Improvement |

SiZer | SiZer: Significant Zero Crossings |

sjdbc | JDBC Driver Interface |

sjPlot | sjPlot - data visualization for statistics in social science |

SKAT | SNP-set (Sequence) Kernel Association Test |

skatMeta | Efficient meta analysis for the SKAT test |

skda | Sparse (Multicategory) Kernel Discriminant Analysis |

SkewHyperbolic | The Skew Hyperbolic Student t-Distribution |

skewt | The Skewed Student-t Distribution |

Skillings.Mack | The Skillings-Mack test Statistic for block designs with missing observations |

skmeans | Spherical k-Means Clustering |

slackr | Send messages, images, R objects and files to Slack.com channels/users |

slam | Sparse Lightweight Arrays and Matrices |

SLC | Slope and level change |

sld | Estimation and Use of the Quantile-Based Skew Logistic Distribution |

Sleuth2 | Data sets from Ramsey and Schafer's "Statistical Sleuth (2nd ed)" |

Sleuth3 | Data sets from Ramsey and Schafer's "Statistical Sleuth (3rd ed)" |

slfm | Tools for fitting sparse latent factor model |

SLHD | Maximin-Distance (Sliced) Latin Hypercube Designs |

slp | Discrete Prolate Spheroidal (Slepian) Sequence Regression Smoothers |

sm | Smoothing methods for nonparametric regression and density estimation |

smaa | Stochastic Multi-criteria Acceptability Analysis |

smacof | Multidimensional Scaling in R: SMACOF |

smam | Statistical Modeling of Animal Movements |

smart | Sparse Multivariate Analysis via Rank Transformation |

SmarterPoland | A set of tools developed by the Foundation SmarterPoland.pl |

smatr | (Standardised) Major Axis Estimation and Testing Routines |

SMC | Sequential Monte Carlo (SMC) Algorithm |

smco | A simple Monte Carlo optimizer using adaptive coordinate sampling |

SMCP | Smoothed minimax concave penalization (SMCP) method for genome-wide association studies |

SMCRM | Data Sets for Statistical Methods in Customer Relationship Management by Kumar and Petersen (2012) |

smcure | Fit Semiparametric Mixture Cure Models |

smcUtils | Utility functions for sequential Monte Carlo |

smdata | Data to accompany Smithson & Merkle, 2013 |

smdc | Document Similarity |

sme | Smoothing-splines Mixed-effects Models |

SMFI5 | R functions and data from Chapter 5 of 'Statistical Methods for Financial Engineering' |

smfsb | SMfSB 2e: Stochastic Modelling for Systems Biology, second edition |

SMIR | Companion to Statistical Modelling in R |

smirnov | Provides two taxonomic coefficients from E. S. Smirnov "Taxonomic analysis" (1969) book |

SmithWilsonYieldCurve | Smith-Wilson Yield Curve Construction |

SML | Statistical Machine Learning |

SMNCensReg | Fitting univariate censored regression model under the scale mixture of normal distributions |

smoother | Smoother |

SmoothHazard | Fitting illness-death model for interval-censored data |

smoothHR | Smooth Hazard Ratio Curves taking a Reference Value |

smoothie | Two-dimensional Field Smoothing |

smoothmest | Smoothed M-estimators for 1-dimensional location |

smoothSurv | Survival Regression with Smoothed Error Distribution |

smoothtail | Smooth Estimation of GPD Shape Parameter |

SMPracticals | Practicals for use with Davison (2003) Statistical Models |

SMR | Studentized Midrange Distribution |

sms | Spatial Microsimulation |

smss | Datasets for Agresti and Finlay's "Statistical Methods for the Social Sciences" |

SMVar | Structural Model for variances |

sn | The skew-normal and skew-t distributions |

sna | Tools for Social Network Analysis |

snapshot | Gadget N-body cosmological simulation code snapshot I/O utilities |

SNFtool | Similarity Network Fusion |

snow | Simple Network of Workstations |

SnowballC | Snowball stemmers based on the C libstemmer UTF-8 library |

snowfall | Easier cluster computing (based on snow) |

snowFT | Fault Tolerant Simple Network of Workstations |

snpar | Supplementary Non-parametric Statistics Methods |

SNPassoc | SNPs-based whole genome association studies |

snpEnrichment | SNPs enrichment analysis |

snplist | Tools to create Gene Sets |

SNPmaxsel | Maximally selected statistics for SNP data |

SNPMClust | A bivariate Gaussian genotype clustering and calling algorithm for Illumina microarrays |

snp.plotter | snp.plotter |

snpStatsWriter | Flexible writing of snpStats objects to flat files |

SNPtools | Accessing, subsetting and plotting mouse SNPs |

sns | Stochastic Newton Sampler (SNS) |

SNSequate | Standard and Nonstandard Statistical Models and Methods for Test Equating |

SOAR | Memory management in R by delayed assignments |

soc.ca | Specific correspondence analysis for the social sciences |

SocialMediaMineR | A Social Media Search and Analytic Tool |

SocialNetworks | Generates social networks based on distance |

SOD | SOD for multidimensional scaling |

SoDA | Functions and Examples for "Software for Data Analysis" |

SODC | Optimal Discriminant Clustering(ODC) and Sparse Optimal Discriminant Clustering(SODC) |

softclassval | Soft classification performance measures |

SoftClustering | Soft Clustering Algorithms |

softImpute | matrix completion via iterative soft-thresholded svd |

soilDB | Soil Database Interface |

soilphysics | Soil Physical Analysis |

soilprofile | A package to consistently represent soil properties along a soil profile |

SoilR | Models of Soil Organic Matter Decomposition |

soil.spec | Soil spectral file conversion, data exploration and regression functions |

soiltexture | Functions for soil texture plot, classification and transformation |

soilwater | soilwater: Implements parametric formulas for soil water retention or conductivity curve |

solaR | Solar Photovoltaic Systems |

SOLOMON | Parentage analysis |

solr | General purpose R interface to Solr |

som | Self-Organizing Map |

soma | General-purpose optimisation with the Self-Organising Migrating Algorithm |

somebm | some Brownian motions simulation functions |

someKfwer | Controlling the Generalized Familywise Error Rate |

someMTP | Some Multiple Testing Procedures |

somplot | Visualisation of hexagonal Kohonen maps |

sonicLength | Estimating Abundance of Clones from DNA fragmentation data |

soobench | Single Objective Optimization Benchmark Functions |

SOR | Estimation using Sequential Offsetted Regression |

SortableHTMLTables | Turns a data frame into an HTML file containing a sortable table |

sortinghat | sortinghat |

sorvi | Finnish Open Government Data Toolkit |

sos | Search contributed R packages, sort by package |

sos4R | An R client for the OGC Sensor Observation Service |

sotkanet | Sotkanet R Tools |

soundecology | Soundscape ecology |

source.gist | Read R code from a GitHub Gist |

sp | classes and methods for spatial data |

sp23design | Design and Simulation of seamless Phase II-III Clinical Trials |

spa | Implements The Sequential Predictions Algorithm |

SPA3G | SPA3G: R package for the method of Li and Cui (2012) |

spaa | SPecies Association Analysis |

space | Sparse PArtial Correlation Estimation |

SPACECAP | A Program to Estimate Animal Abundance and Density using Bayesian Spatially-Explicit Capture-Recapture Models |

spaceExt | Extension of SPACE |

spacejam | Sparse conditional graph estimation with joint additive models |

spacetime | classes and methods for spatio-temporal data |

spacodiR | Spatial and Phylogenetic Analysis of Community Diversity |

spacom | Spatially weighted context data for multilevel modelling |

spam | SPArse Matrix |

spaMM | Mixed Models, Particularly Spatial GLMMs |

SPAr | Perform rare variants association analysis based on summation of partition approaches |

sparc | Semiparametric Generalized Linear Models |

sparcl | Perform sparse hierarchical clustering and sparse k-means clustering |

sparkTable | Sparklines and graphical tables for tex and html |

sparktex | Generate LaTeX sparklines in R |

SPARQL | SPARQL client |

sparr | The sparr package: SPAtial Relative Risk |

sparseBC | Sparse biclustering of transposable data |

sparsediscrim | Sparse and Regularized Discriminant Analysis |

SparseGrid | Sparse grid integration in R |

sparseHessianFD | Numerical estimation of sparse Hessians using ACM TOMS Algorithm 636 |

sparseLDA | Sparse Discriminant Analysis |

sparseLTSEigen | RcppEigen back end for sparse least trimmed squares regression |

SparseM | Sparse Linear Algebra |

sparseMVN | Multivariate normal functions for sparse covariate and precision matrices |

sparsenet | Fit sparse linear regression models via nonconvex optimization |

sparseSEM | Sparse-aware Maximum Likelihood for Structural Equation Models |

SparseTSCGM | Sparse time series chain graphical models |

spartan | Spartan (Simulation Parameter Analysis R Toolkit ApplicatioN) |

spatcounts | Spatial count regression |

spate | Spatio-temporal modeling of large data using a spectral SPDE approach |

spatgraphs | Graphs for spatial point patterns |

spatial | Functions for Kriging and Point Pattern Analysis |

spatialCovariance | Computation of spatial covariance matrices for data on rectangles |

SpatialEpi | Methods and Data for Spatial Epidemiology |

SpatialExtremes | Modelling Spatial Extremes |

spatial.gev.bma | Hierarchical spatial generalized extreme value (GEV) modeling with Bayesian Model Averaging (BMA) |

spatialkernel | Nonparameteric estimation of spatial segregation in a multivariate point process |

spatialnbda | Performs spatial NBDA in a Bayesian context |

SpatialNP | Multivariate nonparametric methods based on spatial signs and ranks |

SpatialPack | Package for analysis of spatial data |

spatialprobit | Spatial Probit Models |

spatialsegregation | Segregation measures for multitype spatial point patterns |

spatialTailDep | Estimation of spatial tail dependence models |

spatial.tools | R functions for working with spatial data |

SpatialTools | Tools for spatial data analysis |

SpatialVx | Spatial Forecast Verification |

SpatioTemporal | Spatio-Temporal Model Estimation |

spatstat | Spatial Point Pattern analysis, model-fitting, simulation, tests |

spatsurv | Bayesian spatial survival analysis with parametric proportional hazards models |

spBayes | Univariate and Multivariate Spatial-temporal Modeling |

spBayesSurv | Spatial Copula Modelling to Bayesian Survival Analysis |

spc | Statistical Process Control – Collection of Some Useful Functions |

spcadjust | Functions for calibrating control charts |

spcosa | Spatial Coverage Sampling and Random Sampling from Compact Geographical Strata |

spcov | Sparse Estimation of a Covariance Matrix |

spcr | Sparse principal component regression |

spd | Semi Parametric Distribution |

spdep | Spatial dependence: weighting schemes, statistics and models |

spdynmod | Spatio-dynamic wetland plant communities model |

spe | Stochastic Proximity Embedding |

speccalt | Alternative spectral clustering, with automatic estimation of k |

SPECIES | Statistical package for species richness estimation |

SpeciesMix | Fit Mixtures of Archetype species |

specificity | Specificity of personality trait-outcome (or trait-trait) associations |

SpecsVerification | Forecast verification routines for the SPECS FP7 project |

spectralGP | Approximate Gaussian processes using the Fourier basis |

spectral.methods | Singular Spectrum Analysis (SSA) tools for time series analysis |

speedglm | Fitting Linear and Generalized Linear Models to large data sets |

speff2trial | Semiparametric efficient estimation for a two-sample treatment effect |

SPEI | Calculation of the Standardised Precipitation-Evapotranspiration Index |

sperich | Auxiliary functions to estimate centers of biodiversity |

sperrorest | Spatial Error Estimation and Variable Importance |

spfrontier | Spatial Stochastic Frontier models estimation |

spgrass6 | Interface between GRASS 6+ geographical information system and R |

spgwr | Geographically weighted regression |

sphereplot | Spherical plotting |

SphericalCubature | Numerical integration over spheres and balls in n-dimensions; multivariate polar coordinates |

SpherWave | Spherical Wavelets and SW-based Spatially Adaptive Methods |

sphet | Estimation of spatial autoregressive models with and without heteroskedastic innovations |

spi | Compute SPI index |

SPIAssay | A genetic-based assay for the identification of cell lines |

spider | Species Identity and Evolution in R |

spikeslab | Prediction and variable selection using spike and slab regression |

spikeSlabGAM | Bayesian variable selection and model choice for generalized additive mixed models |

SPIn | Simulation-efficient Shortest Probability Intervals |

splancs | Spatial and Space-Time Point Pattern Analysis |

splitstackshape | Functions to split concatenated data, conveniently stack columns of data.frames, and conveniently reshape data.frames |

splm | Econometric Models for Spatial Panel Data |

spls | Sparse Partial Least Squares (SPLS) Regression and Classification |

splus2R | Supplemental S-PLUS functionality in R |

splusTimeDate | Times and Dates from S-PLUS |

splusTimeSeries | Time Series from S-PLUS |

spMC | Continuous Lag Spatial Markov Chains |

SPmlficmcm | Semiparametric Maximum likelihood Method for interactions gene-environment in case-mother control-mother designs |

SPMS | Sub-Pathway Mining Software |

spnet | Plotting (social) networks on maps |

spocc | R interface to many species occurrence data sources |

SPODT | Spatial Oblique Decision Tree |

sporm | Semiparametric proportional odds rate model |

SportsAnalytics | Infrastructure for Sports Analytics |

SPOT | Sequential Parameter Optimization |

SPREDA | Statistical Package for Reliability Data Analysis |

sprint | Simple Parallel R INTerface |

sprsmdl | Sparse modeling toolkit |

SPSL | Site Percolation on Square Lattice (SPSL) |

spsmooth | spsmooth: An Extension Package for 'mgcv' |

spsurvey | Spatial Survey Design and Analysis |

spt | Sierpinski Pedal Triangle |

spTimer | Spatio-Temporal Bayesian Modelling Using R |

spuRs | Functions and Datasets for "Introduction to Scientific Programming and Simulation Using R" |

sqldf | Perform SQL Selects on R Data Frames |

sqliter | Connection wrapper to SQLite databases |

sqlshare | API for access to SQLShare database |

sqlutils | Utilities for working with SQL files |

SQN | subset quantile normalization |

SQUAREM | Squared extrapolation methods for accelerating fixed-point iterations |

squash | Color-based plots for multivariate visualization |

sra | Selection Response Analysis |

sROC | Nonparametric Smooth ROC Curves for Continuous Data |

SRRS | The Stepwise Response Refinement Screener (SRRS) |

ss3sim | Fisheries stock assessment simulation testing with Stock Synthesis |

ssanv | Sample Size Adjusted for Nonadherence or Variability of input parameters |

SSDforR | SSD for R to analyze single system data |

sse | Sample size estimation |

ssfit | Fitting of parametric models using summary statistics |

ssh.utils | Local and remote system commands with output and error capture |

ssize.fdr | Sample Size Calculations for Microarray Experiments |

ssmrob | Robust estimation and inference in sample selection models |

SSN | Spatial Modeling on Stream Networks |

sspline | Smoothing Splines on the Sphere |

sss | Tools for importing files in the triple-s .(Standard Survey Structure) format |

SSsimple | State space models |

ssvd | Sparse SVD |

ssym | Fitting Semiparametric Symmetric Regression Models |

st | Shrinkage t Statistic and CAT Score |

stab | data analysis of drug stability for shelf life estimation |

stabledist | Stable Distribution Functions |

StableEstim | Estimate the 4 parameters of stable law using different methods |

Stack | Stylized concatenation of data.frames or ffdfs |

stacomirtools | stacomi ODBC connection class |

stam | Spatio-Temporal Analysis and Modelling |

StAMPP | Statistical Analysis of Mixed Ploidy Populations |

StandardizeText | Standardize Text |

STAR | Spike Train Analysis with R |

stargazer | LaTeX/HTML code and ASCII text for well-formatted regression and summary statistics tables |

STARSEQ | Secondary Trait Association analysis for Rare variants via SEQuence data |

startupmsg | Utilities for start-up messages |

stashR | A Set of Tools for Administering SHared Repositories |

Stat2Data | Datasets for Stat2 |

StatDA | Statistical Analysis for Environmental Data |

StatDataML | implementation of the StatDataML proposal |

statebins | statebins is an alternative to choropleth maps for USA States |

statfi | statfi R tools |

StatMatch | Statistical Matching (aka data fusion) |

StatMethRank | Statistical Methods for Ranking Data |

statmod | Statistical Modeling |

statnet | Software tools for the Statistical Analysis of Network Data |

statnet.common | Common R Scripts and Utilities Used by the Statnet Project Software |

StatRank | Statistical Rank Aggregation: Inference, Evaluation, and Visualization |

stellaR | stellar evolution tracks and isochrones |

Stem | Spatio-temporal models in R |

STEPCAM | ABC-SMC inference of the STEPCAM model |

stepp | Subpopulation Treatment Effect Pattern Plot (STEPP) |

stepPlr | L2 penalized logistic regression with a stepwise variable selection |

stepwise | Stepwise detection of recombination breakpoints |

StereoMorph | Stereo Camera Calibration and Reconstruction |

stilt | Separable Gaussian Process Interpolation (Emulation) |

stima | Simultaneous Threshold Interaction Modeling Algorithm |

stinepack | Stineman, a consistently well behaved method of interpolation |

stm | Estimation of the Structural Topic Model |

StMoSim | Simulate QQ-Norm-Plot |

stocc | Fit a spatial occupancy model via Gibbs sampling |

stochprofML | Stochastic Profiling using Maximum Likelihood Estimation |

stochvol | Efficient Bayesian Inference for Stochastic Volatility (SV) Models |

stockPortfolio | Build stock models and analyze stock portfolios |

stoichcalc | R Functions for Solving Stoichiometric Equations |

Storm | Write Storm Bolts in R using the Storm Multi-Language Protocol |

stosim | Stochastic Simulator for Reliability Modeling of Repairable Systems |

STPGA | Selection of Training Populations by Genetic Algorithm |

stpp | Space-Time Point Pattern simulation, visualisation and analysis |

stppResid | Perform residual analysis on space-time point process models |

StrainRanking | Ranking of pathogen strains |

strap | Stratigraphic Tree Analysis for Palaeontology |

stratification | Univariate Stratification of Survey Populations |

stratigraph | Toolkit for the plotting and analysis of stratigraphic and palaeontological data |

StratSel | Strategic Selection Estimator |

straweib | Stratified Weibull Regression Model |

stream | Infrastructure for Data Stream Mining |

StreamMetabolism | Stream Metabolism-A package for calculating single station metabolism from diurnal Oxygen curves |

streamMOA | stream - Interface to MOA Algorithms |

streamR | Access to Twitter Streaming API via R |

stremo | Functions to help the process of learning structural equation modelling |

stressr | Fetch and plot financial stress index and component data |

StressStrength | Computation and estimation of reliability of stress-strength models |

stringdist | Approximate string matching and string distance functions |

stringi | Character string processing facilities |

stringr | Make it easier to work with strings |

strucchange | Testing, Monitoring, and Dating Structural Changes |

structSSI | Multiple Testing for Hypotheses with Hierarchical or Group Structure |

strum | STRUctural Modeling of Latent Variables for General Pedigree |

strvalidator | Internal validation of forensic STR kits made easy with strvalidator |

stsm | Structural Time Series Models |

stsm.class | Class and Methods for Structural Time Series Models |

stylo | Functions for a variety of stylometric analyses |

SubCultCon | Maximum-Likelihood Cultural Consensus Analysis with Sub-Cultures |

subgroup | Methods for exploring treatment effect heterogeneity in subgroup analysis of clinical trials |

SubLasso | Gene selection using Lasso for Microarray data with user-defined genes fixed in model |

subplex | Subplex optimization algorithm |

subrank | Computes copula using ranks and subsampling |

subselect | Selecting variable subsets |

subsemble | An Ensemble Method for Combining Subset-Specific Algorithm Fits |

subtype | Cluster analysis to find molecular subtypes and their assessment |

sudoku | Sudoku Puzzle Generator and Solver |

SUE | Subsampling method |

summarytools | Dataframe Summaries, Frequency Tables and Numerical Summaries with Customizable Output |

Sunder | Quantification of the effect of geographic versus environmental isolation on genetic differentiation |

SunterSampling | Sunter's sampling design |

supclust | Supervised Clustering of Predictor Variables such as Genes |

superbiclust | Generating Robust Biclusters from a Bicluster Set (Ensemble Biclustering) |

superdiag | R Code for Testing Markov Chain Nonconvergence |

SuperLearner | Super Learner Prediction |

superMDS | Implements the supervised multidimensional scaling (superMDS) proposal of Witten and Tibshirani (2011) |

superpc | Supervised principal components |

SuppDists | Supplementary distributions |

support.BWS | Basic functions for supporting an implementation of best-worst scaling |

support.CEs | Basic functions for supporting an implementation of choice experiments |

surface | Fitting Hansen Models to Investigate Convergent Evolution |

Surrogate | Evaluation of surrogate endpoints in clinical trials |

suRtex | LaTeX descriptive statistic reporting for survey data |

surv2sampleComp | Inference for model-free between-group parameters for censored survival data |

survAccuracyMeasures | Estimate accuracy measures for risk prediction markers from survival data |

survAUC | Estimators of prediction accuracy for time-to-event data |

survC1 | C-statistics for risk prediction models with censored survival data |

surveillance | Temporal and Spatio-Temporal Modeling and Monitoring of Epidemic Phenomena |

survexp.fr | Relative survival, AER and SMR based on French death rates |

survey | analysis of complex survey samples |

surveydata | Tools to manipulate survey data |

Survgini | The Gini concentration test for survival data |

survIDINRI | IDI and NRI for comparing competing risk prediction models with censored survival data |

survival | Survival Analysis |

survivalMPL | Penalised Maximum Likelihood for Survival Analysis Models |

survivalROC | Time-dependent ROC curve estimation from censored survival data |

survMisc | Miscellaneous functions for survival data |

survPresmooth | Presmoothed Estimation in Survival Analysis |

survrec | Survival analysis for recurrent event data |

SurvRegCensCov | Weibull Regression for a Right-Censored Endpoint with Interval-Censored Covariate |

survsim | Simulation of simple and complex survival data |

survSNP | Power and Sample Size Calculations for SNP Association Studies with Censored Time to Event Outcomes |

svapls | Surrogate variable analysis using partial least squares in a gene expression study |

svcm | 2d and 3d Space-Varying Coefficient Models |

svd | Interfaces to various state-of-art SVD and eigensolvers |

svDialogs | SciViews GUI API - Dialog boxes |

svDialogstcltk | SciViews GUI API - Dialog boxes using Tcl/Tk |

svdvisual | SVD visualization tools |

svGUI | SciViews GUI API - Functions to manage GUIs |

svHttp | SciViews GUI API - R HTTP server |

svIDE | SciViews GUI API - IDE and code editor functions |

svKomodo | SciViews GUI API - Functions to interface with Komodo Edit/IDE |

svMisc | SciViews GUI API - Miscellaneous functions |

SVMMaj | SVMMaj algorithm |

svmpath | svmpath: the SVM Path algorithm |

svSocket | SciViews GUI API - R Socket Server |

svSweave | SciViews GUI API - Sweave functions |

svTools | SciViews GUI API - Tools (wrapper for packages tools and codetools) |

svUnit | SciViews GUI API - Unit testing |

svWidgets | SciViews GUI API - Widgets & Windows |

SvyNom | Nomograms for Right-Censored Outcomes from Survey Designs |

svyPVpack | A package for complex surveys including plausible values |

swamp | Visualization, analysis and adjustment of high-dimensional data in respect to sample annotations |

SWATmodel | A multi-OS implementation of the TAMU SWAT model |

SweaveListingUtils | Utilities for Sweave together with TeX listings package |

sweidnumbr | Handling of Swedish Identity Numbers |

sweSCB | An R interface to the web API of Statistics Sweden |

swfscMisc | Miscellaneous Functions for Southwest Fisheries Science Center |

swirl | Learn R, in R |

SwissAir | Air Quality Data of Switzerland for one year in 30 min Resolution |

switchnpreg | Switching nonparametric regression models for a single curve and functional data |

sybil | sybil - Efficient Constrained Based Modelling in R |

sybilccFBA | Cost Constrained FLux Balance Analysis: MetabOlic Modeling with ENzyme kineTics (MOMENT) |

sybilcycleFreeFlux | cycle-Free Flux balance analysis: Efficient removal of thermodynamically infeasible cycles from metabolic flux distributions |

sybilDynFBA | Dynamic FBA : dynamic flux balance analysis |

sybilEFBA | Using gene expression data to improve flux balance analysis predictions |

sybilSBML | SBML Integration in Package sybil |

symbolicDA | Analysis of symbolic data |

symbols | Symbol plots |

symmoments | Symbolic central and noncentral moments of the multivariate normal distribution |

synbreed | Framework for the analysis of genomic prediction data using R |

synbreedData | Data for the synbreed package |

synchronicity | Boost mutex functionality for R |

synchrony | Methods for computing spatial, temporal, and spatiotemporal statistics |

SynchWave | Synchrosqueezed Wavelet Transform |

SYNCSA | SYNCSA - Analysis of functional and phylogenetic patterns in metacommunities |

SynergizeR | Interface to The Synergizer service for translating between sets of biological identifiers |

SyNet | Inference and Analysis of Sympatry Networks |

synlik | Synthetic Likelihood methods for intractable likelihoods |

Synth | Synthetic Control Group Method for Comparative Case Studies |

synthpop | Generating synthetic versions of sensitive microdata for statistical disclosure control |

sysfonts | Loading system fonts into R |

systemfit | Estimating Systems of Simultaneous Equations |

tab | Functions for Creating Summary Tables for Statistical Reports |

Table1Heatmap | Table 1 Heatmap |

table1xls | Produces summary tables and exports them to multi-tab spreadsheet format (.xls or .xlsx) |

TableMonster | Table Monster |

tableone | Create "Table 1" to describe baseline characteristics |

tableplot | Represents tables as semi-graphic displays |

tables | Formula-driven table generation |

TableToLongForm | TableToLongForm |

tabplot | Tableplot, a visualization of large datasets |

tabplotd3 | Tabplotd3, interactive inspection of large data |

tabuSearch | R based tabu search algorithm |

TAM | Test Analysis Modules |

Tampo | Tools for the Analysis of Microchemical Profiles from Otoliths |

TANOVA | Time Course Analysis of Variance for Microarray |

TaoTeProgramming | Illustrations from Tao Te Programming |

TapeR | Flexible tree taper curves based on semiparametric mixed models |

TAQMNGR | Manage tick-by-tick transaction data |

taRifx | Collection of utility and convenience functions |

taRifx.geo | Collection of various spatial functions |

tau | Text Analysis Utilities |

TauP.R | Earthquake Traveltime Calculations for 1-D Earth Models |

tawny | Provides various portfolio optimization strategies including random matrix theory and shrinkage estimators |

tawny.types | Common types for tawny |

taxize | Taxonomic information from around the web |

Taxonstand | Taxonomic standardization of plant species names |

tbart | Teitz and Bart p-median algorithm |

tbdiag | Functions for tuberculosis diagnostics research |

TBEST | Tree Branches Evaluated Statistically for Tightness |

TBSSurvival | TBS Model R package |

TcGSA | Time-course Gene Set Analysis |

tcltk2 | Tcl/Tk Additions |

TDA | Statistical Tools for Topological Data Analysis |

TDD | Time-Domain Deconvolution of Seismometer Response |

tdm | A Tool for Therapeutic Drug Monitoring (TDM) |

TDMR | Tuned Data Mining in R |

tdthap | TDT tests for extended haplotypes |

TeachingDemos | Demonstrations for teaching and learning |

TeachingSampling | Selection of samples and parameter estimation in finite population |

TeachNet | Fits neural networks to learn about back propagation |

TED | Turbulence time series Event Detection and classification |

teigen | Model-based clustering and classification with the multivariate t-distribution |

tempdisagg | Methods for Temporal Disaggregation and Interpolation of TimeSeries |

tensor | Tensor product of arrays |

tensorA | Advanced tensors arithmetic with named indices |

TEQR | Target Equivalence Range Design |

TERAplusB | Test for A+B Traditional Escalation Rule |

tergm | Fit, Simulate and Diagnose Models for Network Evolution based on Exponential-Family Random Graph Models |

termstrc | Zero-coupon Yield Curve Estimation |

ternvis | Visualisation, verification and calibration of ternary probabilistic forecasts |

TESS | Fast simulation of reconstructed phylogenetic trees under time-dependent birth-death processes |

tester | Tests and checks characteristics of R objects |

testit | A simple package for testing R packages |

TestScorer | GUI for entering test items and obtaining raw and transformed scores |

TestSurvRec | Statistical tests to compare two survival curves with recurrent events |

testthat | Testthat code. Tools to make testing fun :) |

testthatsomemore | A mocking, stubbing, and file testing framework extending testthat |

texmex | Statistical modelling of extreme values |

TExPosition | Two-table ExPosition |

texreg | Conversion of R regression output to LaTeX or HTML tables |

textcat | N-Gram Based Text Categorization |

textir | Inverse Regression for Text Analysis |

textometry | Textual Data Analysis Package used by the TXM Software |

tfer | Forensic Glass Transfer Probabilities |

TFMPvalue | Efficient and accurate P-value computation for Position Weight Matrices |

tfplot | Time Frame User Utilities |

tframe | Time Frame coding kernel |

tframePlus | Time Frame coding kernel extensions |

TFX | R API to TrueFX(tm) |

tgp | Bayesian treed Gaussian process models |

tgram | Functions to compute and plot tracheidograms |

TH.data | TH's Data Archive |

thgenetics | Genetic Rare Variants Tests |

Thinknum | Thinknum Data Connection |

threeboost | Thresholded variable selection and prediction based on estimating equations |

ThreeWay | Three-way component analysis |

threg | Threshold Regression |

ThresholdROC | Optimum threshold estimation based on cost function in a two and three state setting |

tibbrConnector | R interface to tibbr |

tictoc | Functions for timing R scripts, as well as implementations of Stack and List structures |

TiddlyWikiR | Create dynamic reports using a TiddlyWiki template |

Tides | Tides |

tidyr | Easily tidy data with spread and gather functions |

tiff | Read and write TIFF images |

tiger | TIme series of Grouped ERrors |

tigerstats | R for Elementary Statistics |

tightClust | Tight Clustering |

tikzDevice | R Graphics Output in LaTeX Format |

tileHMM | Hidden Markov Models for ChIP-on-Chip Analysis |

TilePlot | Characterization of functional genes in complex microbial communities using tiling DNA microarrays |

timeDate | Rmetrics - Chronological and Calendar Objects |

timeit | Easy profiling of R functions |

timeline | Timelines for a Grammar of Graphics |

TimeMachine | Time Machine |

timeordered | Time-ordered and time-aggregated network analyses |

TimeProjection | Time Projections |

timereg | Flexible regression models for survival data |

timeROC | Time-dependent ROC curve and AUC for censored survival data |

timesboot | Bootstrap computations for time series objects |

timeSeries | Rmetrics - Financial Time Series Objects |

timetools | provides objects and tools to manipulate irregular heterogeneous time data and subtime data |

TimeWarp | Date calculations and manipulation |

TIMP | a problem solving environment for fitting separable nonlinear models in physics and chemistry applications |

timsac | TIMe Series Analysis and Control package |

Tinflex | Tinflex - Universal non-uniform random number generator |

TInPosition | Inference tests for TExPosition |

tipom | Automated measure-based classification for flint tools |

tis | Time Indexes and Time Indexed Series |

titan | Titration analysis for mass spectrometry data |

tkrgl | TK widget tools for rgl package |

tkrplot | TK Rplot |

tlemix | Trimmed Maximum Likelihood Estimation |

tlm | Effects under Linear, Logistic and Poisson Regression Models with Transformed Variables |

tlmec | Linear Student-t Mixed-Effects Models with Censored Data |

tlnise | Two-level normal independent sampling estimation |

tm | Text Mining Package |

tmap | Thematic Maps |

tmle | Targeted Maximum Likelihood Estimation |

tmle.npvi | Targeted Minimum Loss Estimation (TMLE) of a NP variable importance of a continuous exposure |

tm.plugin.alceste | Import texts from files in the Alceste format using the tm text mining framework |

tm.plugin.dc | Text Mining Distributed Corpus Plug-In |

tm.plugin.europresse | Import articles from Europresse using the tm text mining framework |

tm.plugin.factiva | Import articles from Factiva using the tm text mining framework |

tm.plugin.lexisnexis | Import articles from LexisNexis using the tm text mining framework |

tm.plugin.mail | Text Mining E-Mail Plug-In |

tm.plugin.webmining | Retrieve structured, textual data from various web sources |

tmvtnorm | Truncated Multivariate Normal and Student t Distribution |

tnet | tnet: Software for Analysis of Weighted, Two-mode, and Longitudinal networks |

toaster | analytics and visualization with Aster Database |

tolerance | Functions for calculating tolerance intervals |

topicmodels | Topic models |

TopKLists | Inference, aggregation and visualization for top-k ranked lists |

topmodel | Implementation of the hydrological model TOPMODEL in R |

topologyGSA | Gene Set Analysis Exploiting Pathway Topology |

topsis | TOPSIS method for multiple-criteria decision making (MCDM) |

tosls | Instrumental Variables Two Stage Least Squares estimation |

tourr | Implement tour methods in pure R code |

tourrGui | A Tour GUI using gWidgets |

tpe | Tree preserving embedding |

TPmsm | Estimation of transitions probabilities in multistate models |

tpr | Temporal Process Regression |

TR8 | A tool for downloading functional traits data for plant species |

track | Track Objects |

trackObjs | Track Objects (last release - package name changed to 'track') |

TrackReconstruction | Reconstruct animal tracks from magnetometer, accelerometer, depth and optional speed data |

tractor.base | A package for reading, manipulating and visualising magnetic resonance images |

traitr | An interface for creating GUIs modeled in part after traits UI module for python |

trajectories | Classes and methods for trajectory data |

TraMineR | Trajectory miner: a toolbox for exploring and rendering sequence data |

TraMineRextras | Extras for use with the TraMineR package |

TRAMPR | TRFLP Analysis and Matching Package for R |

translate | Bindings for the Google Translate API v2 |

translateR | Bindings for the Google and Microsoft Translation APIs |

transport | Optimal transport in various forms |

trapezoid | The Trapezoidal Distribution |

TreatmentSelection | Evaluate Treatment Selection Biomarkers |

treatSens | Sensitivity analysis for causal inference |

tree | Classification and regression trees |

treebase | An R package for discovery, access and manipulation of online phylogenies |

treeclim | Numerical calibration of proxy-climate relationships |

treecm | Centre of mass assessment and consolidation of trees |

treelet | Treelets - an adaptive multi-scale basis for high-dimensional, sparse and unordered data |

treemap | Treemap visualization |

TreePar | Estimating birth and death rates based on phylogenies |

TreeSim | Simulating trees under the birth-death model |

TreeSimGM | Simulating Phylogenetic Trees under a General Model |

TrialSize | R functions in Chapter 3,4,6,7,9,10,11,12,14,15 |

TRIANG | Symmetric discrete triangular distributions |

TRIANGG | General discrete triangular distribution |

triangle | Provides the standard distribution functions for the triangle distribution |

trifield | Some basic facilities for ternary fields and plots |

TriMatch | Propensity Score Matching of Non-Binary Treatments |

trimcluster | Cluster analysis with trimming |

trimTrees | Trimmed opinion pools of trees in a random forest |

trioGxE | A data smoothing approach to explore and test gene-environment interaction in case-parent trio data |

trip | Spatial analysis of animal track data |

tripack | Triangulation of irregularly spaced data |

tripEstimation | Metropolis sampler and supporting functions for estimating animal movement from archival tags and satellite fixes |

TripleR | Social Relation Model (SRM) analyses for single or multiple round-robin groups |

trotter | Pseudo-Vectors Containing All Permutations, Combinations and Subsets of Objects Taken from a Vector |

trueskill | Implementation the TrueSkill algorithm in R |

truncdist | Truncated Random Variables |

truncgof | GoF tests allowing for left truncated data |

truncnorm | Truncated normal distribution |

truncreg | Truncated Gaussian Regression Models |

truncSP | Semi-parametric estimators of truncated regression models |

trust | Trust Region Optimization |

trustOptim | Trust region nonlinear optimization, efficient for sparse Hessians |

TSA | Time Series Analysis |

TSAgg | Time series Aggregation |

tsbridge | Calculate normalising constants for Bayesian time series models |

tsbugs | Create time series BUGS models |

TSclust | Time series clustering utilities |

TScompare | TSdbi Comparison |

TSdata | TSdbi Illustration |

TSdbi | TSdbi (Time Series Database Interface) |

TSdist | Distance Measures for Time Series data |

tsDyn | Nonlinear time series models with regime switching |

TSEN | Two-dimensional peak sentinel tool for GC x GC-HRTOFMS |

tseries | Time series analysis and computational finance |

tseriesChaos | Analysis of nonlinear time series |

tsfa | Time Series Factor Analysis |

TSfame | TSdbi extensions for fame |

TSgetSymbol | TSdbi extension to connect with getSymbols |

TShistQuote | TSdbi extensions for get.hist.quote |

TSHRC | Two Stage Hazard Rate Comparison |

tsintermittent | Intermittent Time Series Forecasting |

TSjson | TSdbi extension for importing time series from web sources via JSON |

tslars | Least angle regression for time series analysis |

tsModel | Time Series Modeling for Air Pollution and Health |

TSMySQL | TSdbi extensions for MySQL |

tsne | T-distributed Stochastic Neighbor Embedding for R (t-SNE) |

TSodbc | TSdbi extensions for ODBC |

tsoutliers | Automatic Detection of Outliers in Time Series |

TSP | Traveling Salesperson Problem (TSP) |

Tsphere | Transposable Sphering for Large-Scale Inference with Correlated Data |

tspmeta | Instance feature calculation and evolutionary instance generation for the traveling salesman problem |

TSPostgreSQL | TSdbi extensions for PostgreSQL |

TSsql | Generic SQL helper functions for TSdbi SQL plugins |

TSSQLite | TSdbi extensions for SQLite |

TSTutorial | Fitting and Predict Time Series Interactive Laboratory |

TSxls | TSdbi extension to connect to spreadsheets |

TSzip | TSdbi extension to connect to zip files |

TTAinterfaceTrendAnalysis | Temporal Trend Analysis Graphical Interface |

tth | TeX to HTML/MathML Translators tth/ttm |

TTR | Technical Trading Rules |

ttScreening | Genome-wide DNA methylation sites screening by use of training and testing samples |

ttutils | Utility functions |

ttwa | Travel To Work Area |

TukeyC | Conventional Tukey Test |

TunePareto | Multi-objective parameter tuning for classifiers |

tuneR | Analysis of music and speech |

tuple | Find every match, or orphan, duplicate, triplicate, or other replicated values |

turboEM | A Suite of Convergence Acceleration Schemes for EM, MM and other fixed-point algorithms |

turfR | TURF Analysis for R |

turner | Turn vectors and lists of vectors into indexed structures |

TurtleGraphics | Turtle graphics in R |

TUWmodel | Lumped hydrological model developed at the Vienna University of Technology for education purposes |

tvd | Total Variation Denoising |

tvm | Time Value of Money Functions |

twang | Toolkit for Weighting and Analysis of Nonequivalent Groups |

tweedie | Tweedie exponential family models |

twiddler | Interactive manipulation of R expressions |

R based Twitter client | |

TwoCop | Nonparametric test of equality between two copulas |

twoStageGwasPower | Compute thresholds and power for two-stage gwas |

twostageTE | Two-Stage Threshold Estimation |

TwoStepCLogit | Conditional logistic regression: A two-step estimation method |

txtplot | Text based plots |

ucbthesis | UC Berkeley graduate division thesis template |

ucminf | General-purpose unconstrained non-linear optimization |

udunits2 | udunits-2 bindings for R |

ump | Uniformly Most Powerful Tests |

unbalanced | The package implements different data-driven method for unbalanced datasets |

unbalhaar | Function estimation via Unbalanced Haar wavelets |

Unicode | Unicode data and utilities |

uniCox | Univarate shrinkage prediction in the Cox model |

uniReg | Unimodal penalized spline regression using B-splines |

unittest | TAP-compliant unit testing |

unmarked | Models for Data from Unmarked Animals |

untb | ecological drift under the UNTB |

upclass | Updated Classification Methods using Unlabeled Data |

uplift | Uplift Modeling |

UPMASK | Unsupervised Photometric Membership Assignment in Stellar Clusters |

urca | Unit root and cointegration tests for time series data |

UScancer | Create US cancer datasets from SEER, IARC, and US Census data |

UScensus2000blkgrp | US Census 2000 Block Group Shapefiles and Additional Demographic Data |

UScensus2000cdp | US Census 2000 Designated Places Shapefiles and Additional Demographic Data |

UScensus2000tract | US Census 2000 Tract Level Shapefiles and Additional Demographic Data |

UScensus2010 | US Census 2010 Suite of R Packages |

usdm | Uncertainty analysis for species distribution models |

useful | A collection of handy, useful functions |

userfriendlyscience | Quantitative analysis made accessible |

UsingR | Data sets, etc. for the text "Using R for Introductory Statistics", second edition |

uskewFactors | Model-based clustering via mixtures of unrestricted skew-t factor analyzer models |

usl | Analyze system scalability with the Universal Scalability Law |

ustyc | Fetch US Treasury yield curve data |

utility | Construct, Evaluate and Plot Value and Utility Functions |

uuid | Tools for generating and handling of UUIDs |

UWHAM | Unbinned weighted histogram analysis method (UWHAM) |

vacem | Vaccination Activities Coverage Estimation Model |

varbvs | Variational inference for Bayesian variable selection |

varComp | Variance component models |

vardiag | A package for variogram diagnostics |

vardpoor | Variance estimation for sample surveys by the ultimate cluster method |

VarEff | Variation of effective population size |

VaRES | Computes value at risk and expected shortfall for over 100 parametric distributions |

VAR.etp | VAR modelling: estimation, testing, and prediction |

VariABEL | Testing of genotypic variance heterogeneity to detect potentially interacting SNP |

VarianceGamma | The Variance Gamma Distribution |

vars | VAR Modelling |

varSelectIP | Objective Bayes Model Selection |

varSelRF | Variable selection using random forests |

VarSwapPrice | Pricing a variance swap on an equity index |

vartors | Transform Definition of Variables to R Scripts |

vbdm | Variational Bayes Discrete Mixture Model |

VBLPCM | Variational Bayes Latent Position Cluster Model for networks |

VBmix | Variational Bayesian mixture models |

vbsr | Variational Bayes Spike Regression Regularized Linear Models |

vcd | Visualizing Categorical Data |

vcdExtra | vcd extensions and additions |

vcf2geno | Efficiently Read Variant Call Format (VCF) into R |

vcrpart | Tree-Based Varying Coefficient Regression for Generalized Linear and Ordinal Mixed Models |

VDA | VDA |

vdg | Variance Dispersion Graphs and Fraction of Design Space Plots |

Vdgraph | This package creates variance dispersion graphs and fraction of design space plots for response surface designs |

VdgRsm | Variance Dispersion and Fraction of Design Space Plots |

vdmR | Visual Data Mining Tools for R |

vecsets | like base::sets tools but keeps duplicate elements |

VecStatGraphs2D | Vector analysis using graphical and analytical methods in 2D |

VecStatGraphs3D | Vector analysis using graphical and analytical methods in 3D |

vectoptim | Vectorized optimization methods |

vegan | Community Ecology Package |

vegclust | Fuzzy clustering of vegetation data |

vegdata | Functions to access vegetation databases (Turboveg) and prepare vegetation data especially its taxonomy for analysis |

vegetarian | Jost Diversity Measures for Community Data |

VennDiagram | Generate high-resolution Venn and Euler plots |

venneuler | Venn and Euler Diagrams |

verification | Weather Forecast Verification Utilities |

VGAM | Vector Generalized Linear and Additive Models |

VGAMdata | Data supporting the VGAM package |

VHDClassification | Discrimination/Classification in very high dimension with linear and quadratic rules |

VideoComparison | Video comparison tool |

VIF | VIF Regression: A Fast Regression Algorithm For Large Data |

VIM | Visualization and Imputation of Missing Values |

VIMGUI | Visualization and Imputation of Missing Values |

VineCopula | Statistical inference of vine copulas |

vines | Multivariate Dependence Modeling with Vines |

violinmplot | Combination of violin plot with mean and standard deviation |

vioplot | Violin plot |

viopoints | 1-D Scatter Plots with Jitter Using Kernel Density Estimates |

virtualspecies | Generation of Virtual Species Distributions |

visova | Visualization of Analysis of Variance(VISOVA) |

visreg | Visualization of regression models |

visualFields | Statistical methods for visual fields |

visualizationTools | Package contains a few functions to visualize statistical circumstances |

visualize | Graph Probability Distributions with User Supplied Parameters and Stats |

VisuClust | VisuClust |

vitality | vitality: Fitting routines for the Vitality family of mortality models |

VizOR | Graphical visualization tools for complex observational data with focus on health sciences (VizOR) |

VLF | Frequency Matrix Approach for Assessing Very Low Frequency Variants in Sequence Records |

VLMC | VLMC – Variable Length Markov Chains |

VNM | Multiple objective optimal design |

Voss | Generic Voss algorithm (random sequential additions) |

vowels | Vowel Manipulation, Normalization, and Plotting |

vows | Voxelwise semiparametrics |

VoxR | Metrics extraction of trees from T-LiDAR data |

VPdtw | Variable Penalty Dynamic Time Warping |

vrmlgen | Generate 3D visualizations for data exploration on the web |

vrtest | Variance Ratio tests and other tests for Martingale Difference Hypothesis |

vscc | Variable selection for clustering and classification |

VSURF | Variable Selection Using Random Forests |

vwr | Useful functions for visual word recognition research |

W2CWM2C | The W2CWM2C package is a set of functions to produce new graphical tools for wavelet correlation (bivariate and multivariate cases) using some routines from the waveslim and wavemulcor packages |

W3CMarkupValidator | R Interface to W3C Markup Validation Services |

waffect | A package to simulate constrained phenotypes under a disease model H1 |

waldwolf | Wald-Wolfowitz trend test |

walkscoreAPI | Walk Score and Transit Score API |

WARN | Weaning Age Reconstruction with Nitrogen isotope analysis |

wasim | Visualisation and analysis of output files of the hydrological model WASIM |

waterData | An R Package for Retrieval, Analysis, and Anomaly Calculation of Daily Hydrologic Time Series Data |

waterfall | Waterfall Charts in R |

Wats | Wrap Around Time Series graphics |

waveband | Computes credible intervals for Bayesian wavelet shrinkage |

WaveCD | Wavelet change point detection for array CGH data |

waved | Wavelet Deconvolution |

wavelets | A package of functions for computing wavelet filters, wavelet transforms and multiresolution analyses |

wavemulcor | Wavelet routine for multiple correlation |

waveslim | Basic wavelet routines for one-, two- and three-dimensional signal processing |

wavethresh | Wavelets statistics and transforms |

wbs | Wild Binary Segmentation for multiple change-point detection |

wccsom | SOM networks for comparing patterns with peak shifts |

WCQ | Detection of QTL effects in a small mapping population |

WDI | World Development Indicators (World Bank) |

weatherData | Get Weather Data from the Web |

WebDevelopR | Website development package for R |

webvis | Create graphics for the web from R |

WeightedCluster | Clustering of Weighted Data |

weightedKmeans | Weighted KMeans Clustering |

WeightedPortTest | Weighted Portmanteau Tests for Time Series Goodness-of-fit |

weightedScores | Weighted scores method for regression with dependent data |

weights | Weighting and Weighted Statistics |

weirs | A Hydraulics Package to Compute Open-Channel Flow over Weirs |

wesanderson | A Wes Anderson Palette Generator |

wfe | Weighted Linear Fixed Effects Regression Models for Causal Inference |

wgaim | Whole Genome Average Interval Mapping for QTL detection using mixed models |

WGCNA | Weighted Correlation Network Analysis |

wgsea | Wilcoxon based gene set enrichment analysis |

WhatIf | WhatIf: Software for Evaluating Counterfactuals |

whisker | {{mustache}} for R, logicless templating |

WhopGenome | High-speed processing of whole-genome VCF-format variation data, FASTA-format sequence data and several alignments formats |

widals | Weighting by Inverse Distance with Adaptive Least Squares for Massive Space-Time Data |

WideLM | Fitting many skinny linear models to a single data set |

widenet | Penalized Regression with Polynomial Basis Expansions |

wikibooks | Functions and datasets of the german WikiBook "GNU R" |

WikipediR | A MediaWiki API wrapper |

WilcoxCV | Wilcoxon-based variable selection in cross-validation |

wildlifeDI | Calculate Indices of Dynamic Interaction for Wildlife Telemetry Data |

witness | This package fits eyewitness data using Clark's (2003) WITNESS model |

wle | Weighted Likelihood Estimation |

WMCapacity | GUI implementing Bayesian working memory models |

WMDB | Discriminant Analysis Methods by Weight Mahalanobis Distance and bayes |

wmtsa | Wavelet Methods for Time Series Analysis |

wnominate | WNOMINATE Roll Call Analysis Software |

wombsoft | Wombling Computation |

wordcloud | Word Clouds |

wordmatch | Matches words in one file with words in another file |

wordnet | WordNet Interface |

WordPools | Classical word pools used in studies of learning and memory |

wpp2008 | World Population Prospects 2008 |

wpp2010 | World Population Prospects 2010 |

wpp2012 | World Population Prospects 2012 |

wppExplorer | Explorer of World Population Prospects |

wq | Exploring water quality monitoring data |

WrightMap | Wright Map: IRT item-person map with ConQuest integration |

write.snns | Function for exporting data to SNNS pattern files |

WriteXLS | Cross-platform Perl based R function to create Excel 2003 (XLS) and Excel 2007 (XLSX) files |

wrspathrow | Functions for working with Worldwide Reference System (WRS) |

wrspathrowData | Data used by the wrspathrow package |

wskm | Weighted k-means Clustering |

wsrf | Weighted Subspace Random Forest |

wSVM | Weighted SVM with boosting algorithm for improving accuracy |

wtcrsk | Competing risks regression models with covariate-adjusted censoring weight |

WWGbook | Functions and datasets for WWGbook |

x12 | x12 - wrapper function and structure for batch processing |

x12GUI | X12 - Graphical User Interface |

XBRL | Extraction of business financial information from XBRL documents |

x.ent | eXtraction of ENTity |

xergm | Extensions for Exponential Random Graph Models (ERGM) |

xgboost | eXtreme Gradient Boosting |

xgobi | Interface to the XGobi and XGvis programs for graphical data analysis |

xhmmScripts | XHMM R scripts |

XiMpLe | A simple XML tree parser and generator |

xkcd | Plotting ggplot2 graphics in a XKCD style |

XLConnect | Excel Connector for R |

XLConnectJars | JAR dependencies for the XLConnect package |

xlsx | Read, write, format Excel 2007 and Excel 97/2000/XP/2003 files |

xlsxjars | Package required POI jars for the xlsx package |

Xmisc | Xiaobei's miscellaneous classes and functions |

XML | Tools for parsing and generating XML within R and S-Plus |

XML2R | EasieR XML data collection |

XNomial | Exact Goodness-Of-Fit Test For Multinomial Data With Fixed Probabilities |

xoi | Tools for analyzing crossover interference |

xpose4 | Xpose 4 |

xtable | Export tables to LaTeX or HTML |

xtermStyle | Basic text formatting using xterm escape sequences |

xts | eXtensible Time Series |

yacca | Yet Another Canonical Correlation Analysis Package |

yaImpute | yaImpute: An R Package for k-NN Imputation |

YaleToolkit | Data exploration tools from Yale University |

yaml | Methods to convert R data to YAML and back |

ycinterextra | Yield curve or zero-coupon prices interpolation and extrapolation |

yhat | Interpreting Regression Effects |

yhatr | R binder for the Yhat API |

YieldCurve | Modelling and estimation of the yield curve |

ykmeans | K-means using a target variable |

YourCast | Forecasting age-sex-country-cause mortality rates |

YplantQMC | Plant architectural analysis with Yplant and QuasiMC |

YPmodel | The Short-term and Long-term Hazard Ratio Model for Survival Data |

YuGene | YuGene: A simple approach to scale gene expression data derived from different platforms for integrated analyses |

yuima | The YUIMA Project package for SDEs |

zCompositions | Imputation of Zeros and Nondetects in Compositional Data Sets |

ZeBook | ZeBook Working with dynamic models for agriculture and environment |

Zelig | Everyone's Statistical Software |

ZeligChoice | Zelig Choice Models |

ZeligGAM | General Additive Models for Zelig |

ZeligMultilevel | Multilevel Regressions for Zelig |

zendeskR | Zendesk API Wrapper |

zic | Bayesian Inference for Zero-Inflated Count Models |

ZIM | Zero-Inflated Models for Count Time Series with Excess Zeros |

zipcode | U.S. ZIP Code database for geocoding |

zipfR | Statistical models for word frequency distributions |

zoeppritz | Zoeppritz Equations |

zoib | Bayesian Inference for Zero/One Inflated Beta Regression |

zoo | S3 Infrastructure for Regular and Irregular Time Series (Z's ordered observations) |

zooimage | Analysis of numerical zooplankton images |

zoom | A spatial data visualization tool |

zyp | Zhang + Yue-Pilon trends package |