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This package is for version 2.8 of Bioconductor; for the stable, up-to-date release version, see Biobase.

Biobase: Base functions for Bioconductor

Bioconductor version: 2.8

Functions that are needed by many other packages or which replace R functions.

Author: R. Gentleman, V. Carey, M. Morgan, S. Falcon

Maintainer: Biocore Team c/o BioC user list <bioconductor at>

Citation (from within R, enter citation("Biobase")):


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PDF BiobaseDevelopment.pdf
PDF Bioconductor.pdf
PDF esApply.pdf
PDF ExpressionSetIntroduction.pdf
PDF HowTo.pdf
PDF Qviews.pdf
PDF   Reference Manual


biocViews Bioinformatics, Infrastructure, Software
Version 2.12.2
In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 11 years)
License Artistic-2.0
Depends R (>= 2.7.0), methods, utils
Suggests tools, tkWidgets, ALL
Depends On Me a4Base, a4Core, ACME, affy, affycomp, affycompData, affyContam, affycoretools, affylmGUI, affyPLM, affyQCReport, Agi4x44PreProcess, AgiMicroRna, ALL, altcdfenvs, annaffy, AnnotationDbi, ArrayExpress, arrayMvout, ArrayTools, beadarray, beadarraySNP, bgx, BicARE, BiocCaseStudies, bioDist, BioMVCClass, BioNet, bladderbatch, Category, CCl4, cellHTS, cellHTS2, ceuhm3, CGHbase, CGHcall, CGHregions, charm, cheung2010, clippda, CLL, clusterStab, CMA, cn.farms, codelink, colonCA, convert, copa, crlmm, davidTiling, ddCt, DESeq, DFP, DLBCL, dressCheck, dualKS, dyebias, EBarrays, edd, eisa, encoDnaseI, ExiMiR, factDesign, fibroEset, flowClust, flowCore, frma, gaga, gaschYHS, GeneAnswers, GeneMeta, geneplotter, geneRecommender, GeneRegionScan, GeneSelectMMD, GeneSelector, GeneSpring, GeneTraffic, genoset, GEOquery, GGBase, GGdata, GGtools, golubEsets, goProfiles, GOstats, GSEABase, GSEAlm, GSVAdata, harbChIP, HELP, hmyriB36, hopach, HTqPCR, humanStemCell, idiogram, iterativeBMA, Iyer517, kidpack, leeBamViews, LMGene, lumi, lumiBarnes, lungExpression, LVSmiRNA, macat, maDB, MAQCsubset, MAQCsubsetAFX, MAQCsubsetILM, maSigPro, MergeMaid, methylumi, Mfuzz, MiChip, MLInterfaces, MSnbase, Mulcom, multtest, mvoutData, Neve2006, oligoClasses, oneChannelGUI, ontoTools, OrderedList, OTUbase, OutlierD, PAnnBuilder, panp, pcaMethods, pcot2, pdInfoBuilder, pdmclass, PGSEA, phenoTest, plgem, PLPE, prada, ProData, PROMISE, puma, pumadata, qpcrNorm, R453Plus1Toolbox, RbcBook1, rbsurv, reb, RefPlus, Resourcerer, rHVDM, Ringo, RMAGEML, Rmagpie, rMAT, RNAinteract, rnaSeqMap, RpsiXML, RTCA, RTools4TB, Rtreemix, safe, siggenes, simpleaffy, SNPchip, SpeCond, SpikeInSubset, spkTools, splicegear, TDARACNE, tigre, tilingArray, topGO, tspair, twilight, vsn, webbioc, XDE, yeastCC
Imports Me ABarray, aCGH, adSplit, affy, affyQCReport, AgiMicroRna, annotate, AnnotationDbi, annotationTools, ArrayExpressHTS, arrayQualityMetrics, ArrayTools, attract, betr, biocViews, BioSeqClass, Category, CGHnormaliter, charm, ChromHeatMap, ConsensusClusterPlus, cycle, EBarrays, ecolitk, ExiMiR, farms, flowCore, flowFlowJo, flowFP, flowMeans, flowStats, flowUtils, flowViz, frma, frmaTools, gcrma, genefilter, GeneMeta, geneplotter, geneRecommender, GeneRegionScan, GeneSelectMMD, GeneSpring, GeneTraffic, genomeIntervals, genoset, GEOsubmission, girafe, globaltest, GOstats, GSEABase, GSRI, GSVA, Harshlight, HEM, hopach, HTqPCR, iFlow, imageHTS, lapmix, LiquidAssociation, lumi, maanova, makecdfenv, makePlatformDesign, maSigPro, mBPCR, MCRestimate, metaArray, methylumi, MiChip, MiPP, multiscan, oligo, OrderedList, PAnnBuilder, panp, PCpheno, plateCore, plier, ppiStats, prada, PROMISE, puma, pvac, qpgraph, R453Plus1Toolbox, rflowcyt, Rmagpie, rMAT, Rtreemix, safe, SAGx, ShortRead, simpleaffy, SLGI, SNPchip, spkTools, splicegear, TEQC, tigre, timecourse, topGO, twilight, webbioc, XDE, xmapcore
Suggests Me annotate, betr, BiocCaseStudies, biocViews, breastCancerMAINZ, breastCancerNKI, breastCancerTRANSBIG, breastCancerUNT, breastCancerUPP, breastCancerVDX, BSgenome, Category, ccTutorial, dyebiasexamples, estrogen, farms, genefilter, geneplotter, GlobalAncova, globaltest, hexbin, les, nem, pkgDepTools, ROC, survcomp, tkWidgets, vbmp, widgetTools, yeastExpData, yeastRNASeq
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