############################################################################### ## News: to package RobLoxBioC ############################################################################### (first two numbers of package versions do not necessarily reflect package-individual development, but rather are chosen for the RobAStXXX family as a whole in order to ease updating "depends" information) ####################################### version 0.8.3 ####################################### + update for beadarray versions >= 2.0.0 with support by Mark Dunnings and Andy Lynch + some changes for internal functions due to changes in R 2.16.0 regarding .C and .Call ####################################### version 0.8 ####################################### + renamed AffySimStudy.R to AffymetrixSimStudy.R + update of Figure numbers in IlluminaExample.R + added scripts AffymetrixReproducibility.R and IlluminaReproducibility.R + DESCRIPTION files and package-help files gain a tag SVNRevision to be filled by get[All]RevNr.R from utils in distr ####################################### ## version 0.7.1 ####################################### + corrected bug in AffySimStudy and IlluminaSimStudy + minor modifications of scripts in scripts folder ####################################### version 0.7 ####################################### GENERAL ENHANCEMENTS: + added tests/Examples folder with file RobLoxBioC-Ex.Rout.save to have some automatic testing + added TOBEDONE (sic!) files; in English (for possible collaborators) + added keyword robust and made some minor corrections ... + added/updated NEWS files, updated CITATION files using code by A. Zeileis + Rd-parsing: * patch for Brian Ripley's Re: [Rd] Warning: missing text for item ... in \describe? * fixed errors / warnings in .Rd files detected by parser 2 (c.f. [Rd] More intensive checking of R help files, Prof Brian Ripley, 09.01.2009 10:25) + svn-revision-tags * added in all DESCRIPTION files * added field "Encoding: latin1" to all DESCRIPTION files because substituting $LastChangedDate by svn would cause problems for packages built under Windows (German) local when checking under Linux. + removed pdf-file from version control - Rnw-file is sufficient INTERNALLY: + renamed AllGeneric.R to 0AllGeneric.R to be on first position ... + in robloxAffyBatch.R return se not sd ... + some modifications for Figure 2 in IlluminaExample.R + set default to 3-step estimation ... + changed return value of KolmogorovMinDist, now also returns the corresponding sample sizes. + Added file for Illumina simulation study and renamed file AffySimStudy.Rd to SimStudies.Rd. + reduced the Illumina example code to relevant part ... BUGFIXES: + code seems to work correctly, affycompTable in AffymetrixExample does not work yet (because of missing dilution data). ####################################### version 0.5 ####################################### + added example code for Illumina data + function to perform Monte-Carlo studies for comparison with Illumina's default method ####################################### version 0.4 ####################################### + added finite-sample correction + handle cases with sample size <= 2 and contamination eps = 0 + moved function AffySimStudy from folder inst/scripts to folder R as exported and documented function to perform Monte-Carlo studies. ####################################### version 0.3 ####################################### + added KolmogorovMinDist methods for matrix, AffyBatch and BeadLevelList ####################################### version 0.2 ####################################### + robloxbioc methods for AffyBatch and BeadLevelList ####################################### version 0.1 ####################################### + start of development