Bibliography on
Microarray Data Analysis

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© Copyright, 1999-2009 Wentian Li
of North Shore LIJ Research Institute

http://www.nslij-genetics.org/microarray/

see also, YukFai Leung's microarray analysis and database softwares comparison page
Korbinian Strimmer's R packages for gene expression analysis

from bioconductor
http://www.bioconductor.org/packages/release/Software.html

ABARRAY, ACGH, ACME, ADSPLIT, AFFXPARSER, AFFY, AFFYCOMP, AFFYCOMPATIBLE, AFFYCONTAM, AFFYCORETOOLS, AFFYEXPRESS, AFFYIO, AFFYLMGUI, AFFYPARA, AFFYPDNN, AFFYPLM, AFFYQCREPORT, AFFYTILING, AGI4X44PREPROCESS, ALTCDFENVS, ANNAFFY, ANNOTATE, ANNOTATIONDBI, ANNOTATIONTOOLS, APCOMPLEX, AROMA.LIGHT, ARRAYEXPRESS, ARRAYMVOUT, ARRAYQUALITY, ARRAYQUALITYMETRICS, ARRAYTOOLS, BAC, BCRANK, BEADARRAY, BEADARRAYSNP, BETR, BGAFUN, BGMIX, BGX, BICARE, BIOBASE, BIOCCASESTUDIES, BIOCDATASETS, BIOCGRAPH, BIOCVIEWS, BIODIST, BIOMART, BIOMVCCLASS, BIOSTRINGS, BRIDGE, BSGENOME, BUFFERREDMATRIX, BUFFERREDMATRIXMETHODS, CALIB, CAMERA, CATEGORY, CELLHTS, CELLHTS2, CGHBASE, CGHCALL, CGHMCR, CGHREGIONS, CHEMMINER, CLUSTERSTATB, CMA, COCITESTATS, CODELINK, CONVERT, COPA, CORREP, COSMO, COSMOGUI, CRLMM, CTC, DAMA, DEDS, DFP, DIFFGENEANALYSIS, DNACOPY, DOMAINSIGNATURES, DUALKS, DYEBIAS, DYNDOC, EBARRAYS, EBIMAGE, ECOLITK, EDD, EDGER, EXONMAP, EXPLORASE, EXTERNALVECTOR, FACTDESIGN,FBAT, FDRAME, FLAGME, FLOWCLUST, FLOWFLOWJO, FLOWQ, FLOWSTATS, FLOWUTILS, FLOWVIZ, GAGA, GAGGLE, GCRMA, GENARISE, GENE2PATHWAY, GENEFILTER, GENEMETA, GENEPLOTTER,GENER, GENERECOMMENDER, GENEREGIONSCAN, GENERFOLD, GENESELECTMMD, GENESELECTOR, GENESPRING, GENETICBASE, GENETICSDESIGN, GENETICSPED, GENETRAFFIC, GENOMEGRAPHS, GENOMEINTERVALS, GEOMETADB, GEOQUERY, GGBASE, GGTOOLS, GLAD, GLOBALANCOVA, GLOBALTEST, GOPROFILES, GOSTATS, GOTOOLS, GPLS, GRAPH, GRAPHALIGNMENT, GRAPHAT, GSEABASE, GSEALM, HARSHLIGHT, HEATPLUS, HELP, HEM, HEXBIN, HILBERTVIS, HILBERTVISGUI, HOPACH, HYPERGRAPH, ICENS, IDIOGRAM, IMPURE, IRANGES, ITALICS, ITERATIVEBMA, ITERATIVEBMASURV, KCSMART, KEGGGRAPH, KEGGORTH, LAPMIX, LBE, LIMMA, LIMMAGUI, LMGENE, LOGICFS, LOGITFS, LOGITIT, LPE, LPEADJ, LUMI, MAANOVA, MACAT, MACORRPLOT, MADB, MADE4, MAIGESPACK, MAKECDFENV, MAKEPLATFORMDESIGN, MANOR, MANTELCORR, MARRAY, MASIGPRO, MASSSPECWAVELET, MATCHPROBES, MCRESTIMATE, MDQC, MEASUREMENTERROR.COR, MEDME, MERGEMAID, METAARRAY, METAHDEP, MFUZZ, MICRORNA, MINET, MIPP, MIRNAPATH, MLINTERFACES, MULTISCAN, MULTTEST, MVCCLASS, NEM, NNNORM, NUDGE, OCCUGENE, OCPLUS, OLIGO, OLIGOCLASSES, OLIN, OLINGUI, ONECHANNELGUI, ONTOTOOLS, ORDEREDLIST, OUTLIERD, PAMR, PANNBUILDER, PANP, PARODY, PATHRENDER, PCAMETHODS, PCOT2, PCPHENO, PDINFOBUILDER, PDMCLASS, PGSEA, PGUTILS, PICKGENE, PKGDEPTOOLS, PLGEM, PLIER, PLPE, PLW, PPISTATS, PRADA, PREPRECESSCORE, PROCESS, PUMA, QPCRNORM, QPGRAPH, QUANTSMOOTH, QVALUE, RAMA, RANKPROD, RBCBOOK1, RBGL, RBIOINF, RBSURV, RDBI, RDBIPGSQL, RDISOP, REB, REFPLUS, RESOURCERER, RFLOWCYT, RGRAPHVIZ, RHVDM, RINGO, RINTACT, RLMM, RMAGEML, RMAGPIE, RMAT, RNAITHER, ROC, RPSIXML, RREDLAND, RSBML, RTRACKLAYER, RTREEMIX, RUUID, RWEBSERVICES, SAFE, SAGENHAFT, SAGX, SBMLR, SCISI, SEQLOGO, SIGGENES, SIGPATHWAY, SIM, SIMPLEAFFY, SIMULATORAPMS, SIZEPOWER, SLGI, SLQPCR, SMAP, SNAPCGH, SNPCHIP, SNPMATRIX, SPIA, SPIKELI, SPKTOOLS, SPLICEGEAR, SPLOTS, SPOTSEGMENTATION, SSCORE, SSIZE, SSPA, STAM, STEPNORM, TARGETSEARCH, TILINGARRAY, TIMECOURSE, TKWIDGETS, TOPGO, TSPAIR, TWILIGHT, TYPEINFO, VANILLAICE, VBMP, VSN, WEAVER, WEBBIOC, WIDGETTOOLS, XCMS, XDE, XMAPBRIDGE, XPS, YAQCAFFY

public domain programs
public domain programs - image processing
public domain programs - data management