This package is for version 3.11 of Bioconductor;
for the stable, up-to-date release version, see
Biobase.
Functions that are needed by many other packages or which replace R functions.
Author: R. Gentleman, V. Carey, M. Morgan, S. Falcon
To view documentation for the version of this package installed
in your system, start R and enter:
| biocViews |
Infrastructure, Software |
| Version |
2.48.0 |
| In Bioconductor since |
BioC 1.6 (R-2.1) or earlier (> 15.5 years) |
| License |
Artistic-2.0 |
| Depends |
R (>= 2.10), BiocGenerics(>= 0.27.1), utils |
| Imports |
methods |
| LinkingTo |
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| Suggests |
tools, tkWidgets, ALL, RUnit, golubEsets |
| SystemRequirements |
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| Enhances |
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| URL |
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| Depends On Me |
a4Base, a4Core, ACME, affy, affycomp, affycompData, affyContam, affycoretools, affyPLM, affyQCReport, AGDEX, AgiMicroRna, AIMS, ALL, altcdfenvs, annaffy, AnnotationDbi, AnnotationForge, antiProfilesData, ArrayExpress, arrayMvout, ArrayTools, Autotuner, BAGS, bcellViper, beadarray, beadarrayExampleData, beadarraySNP, bgx, BicARE, bigmelon, BiocCaseStudies, bioDist, BioMVCClass, BioQC, biosigner, birta, bladderbatch, BLMA, BrainStars, brgedata, CAMERA, cancerclass, cancerdata, casper, Category, categoryCompare, CCl4, CCPROMISE, cellHTS2, ceu1kg, ceuhm3, CGHbase, CGHcall, CGHregions, chimera, chroGPS, clippda, CLL, clusterStab, CMA, cn.farms, codelink, colonCA, convert, copa, covEB, covRNA, CRCL18, curatedBreastData, curatedMetagenomicData, davidTiling, DESeq, DEXSeq, DFP, diggit, diggitdata, DLBCL, doppelgangR, dressCheck, dsQTL, DSS, dualKS, dyebias, EBarrays, EDASeq, edge, EGSEA, eisa, epigenomix, epivizrData, etec16s, EuPathDB, ExiMiR, ExpressionAtlas, fabia, fabiaData, factDesign, fastseg, fibroEset, flowBeads, frma, gaga, gaschYHS, gCMAPWeb, GeneAnswers, GeneExpressionSignature, GeneMeta, geneplotter, geneRecommender, GeneRegionScan, GeneSelectMMD, geNetClassifier, GEOquery, GGdata, GOexpress, GOFunction, golubEsets, goProfiles, GOstats, GSE62944, GSEABase, GSEABenchmarkeR, GSEAlm, GSVAdata, GWASTools, hapFabia, harbChIP, HELP, Hiiragi2013, hmyriB36, hopach, HTqPCR, HumanAffyData, humanStemCell, HybridMTest, iBMQ, iCheck, IdeoViz, idiogram, InPAS, INSPEcT, isobar, iterativeBMA, IVAS, Iyer517, kidpack, leeBamViews, leukemiasEset, LMGene, lumi, lumiBarnes, lungExpression, macat, maEndToEnd, mAPKL, MAQCsubset, MAQCsubsetAFX, MAQCsubsetILM, massiR, MEAL, MergeMaid, metabomxtr, metagenomeFeatures, metagenomeSeq, MetaGxBreast, MetaGxOvarian, MetaGxPancreas, metavizr, MethPed, methyAnalysis, methylumi, Mfuzz, MiChip, mimager, MIMOSA, MineICA, MiRaGE, miRcomp, miRNATarget, MLInterfaces, MMDiff2, MmPalateMiRNA, monocle, msd16s, MSnbase, Mulcom, MultiDataSet, multtest, mvoutData, NanoStringDiff, Neve2006, NOISeq, nondetects, normalize450K, NormqPCR, oligo, omicRexposome, OrderedList, OTUbase, OutlierD, PADOG, pandaR, panp, pcaMethods, pcot2, pdInfoBuilder, pepStat, PGSEA, phenoTest, PLPE, plrs, prada, PREDA, PREDAsampledata, ProData, pRolocGUI, PROMISE, prostateCancerCamcap, prostateCancerGrasso, prostateCancerStockholm, prostateCancerTaylor, prostateCancerVarambally, pumadata, qpcrNorm, qPLEXanalyzer, R453Plus1Toolbox, RbcBook1, rbsurv, rcellminer, rcellminerData, ReadqPCR, reb, RefPlus, rexposome, Ringo, Risa, Rmagpie, RNAinteract, rnaSeqMap, Rnits, Roleswitch, ropls, RpsiXML, RTCA, RTopper, RUVnormalizeData, RUVSeq, safe, SCAN.UPC, SeqGSEA, sigaR, SigCheck, siggenes, simpleaffy, simulatorZ, singleCellTK, SpeCond, SPEM, SpikeInSubset, spkTools, splicegear, splineTimeR, STROMA4, SummarizedExperiment, TCGAcrcmiRNA, TCGAcrcmRNA, TDARACNE, tigre, tilingArray, topGO, TPP, tRanslatome, tspair, tweeDEseqCountData, twilight, UNDO, variancePartition, VegaMC, viper, vsn, wateRmelon, waveTiling, webbioc, xcms, XDE, yarn, yeastCC |
| Imports Me |
ABarray, ACE, aCGH, adSplit, affyILM, affyQCReport, AgiMicroRna, AnalysisPageServer, ANF, annmap, annotate, AnnotationHubData, annotationTools, ArrayExpressHTS, arrayQualityMetrics, ArrayTools, attract, ballgown, BASiCS, BayesKnockdown, BgeeDB, biobroom, bioCancer, biocViews, BioNet, BioSeqClass, biosvd, biscuiteer, BiSeq, blima, BloodCancerMultiOmics2017, BrainStars, bsseq, BubbleTree, CAFE, CAMTHC, canceR, Cardinal, ccTutorial, CellScore, CellTrails, ceu1kgv, cgdv17, CGHnormaliter, ChIPpeakAnno, ChIPQC, ChIPXpress, ChromHeatMap, chromswitch, cicero, clipper, CluMSID, cn.mops, COCOA, coexnet, cogena, combi, ConsensusClusterPlus, consensusDE, consensusOV, coRdon, CoreGx, crlmm, CrossICC, crossmeta, ctgGEM, cummeRbund, cycle, cydar, CytoML, ddCt, debCAM, deco, DEGreport, DESeq2, DeSousa2013, destiny, diffloop, discordant, easyRNASeq, EBarrays, ecolitk, EGAD, ENmix, ensembldb, erma, esetVis, ExiMiR, exomePeak2, ExpressionNormalizationWorkflow, farms, ffpe, FindMyFriends, Fletcher2013a, flowClust, flowCore, flowFP, flowMatch, flowMeans, flowSpy, flowStats, flowType, flowUtils, flowViz, flowWorkspace, FourCSeq, FRASER, frma, frmaTools, FunciSNP, GAPGOM, gCMAP, gCrisprTools, gcrma, GCSscore, genbankr, geneClassifiers, genefilter, GeneMeta, geneRecommender, GeneRegionScan, GENESIS, GenomicFeatures, GenomicInteractions, GenomicScores, GEOsubmission, gep2pep, gespeR, GGBase, ggbio, GGtools, girafe, GISPA, GlobalAncova, globaltest, gmapR, GOFunction, gQTLstats, GSRI, GSVA, Gviz, Harshlight, HEM, hgu133plus2CellScore, HTqPCR, HTSFilter, IdMappingAnalysis, IHWpaper, imageHTS, ImmuneSpaceR, ImpulseDE2, InTAD, IsoGeneGUI, isomiRs, iterClust, JunctionSeq, KEGGandMetacoreDzPathwaysGEO, KEGGdzPathwaysGEO, kimod, kissDE, KnowSeq, lapmix, LINC, LiquidAssociation, LRBaseDbi, LVSmiRNA, maanova, MAGeCKFlute, makecdfenv, maSigPro, MAST, mBPCR, MCRestimate, mcsurvdata, MeSHDbi, metaArray, metaseqR2, methyAnalysis, MethylAid, methylCC, methylumi, mfa, MiChip, microbiomeDASim, MIGSA, minfi, MinimumDistance, MiPP, MIRA, miRSM, missMethyl, MLSeq, MMAPPR2, MmPalateMiRNA, MOFA, mogsa, MoonlightR, MoPS, MOSim, MSnID, MTseeker, MultiAssayExperiment, multiscan, mzR, NanoStringQCPro, ncdfFlow, NormalyzerDE, npGSEA, nucleR, OGSA, oligoClasses, ontoProc, openCyto, oposSOM, oppar, OrganismDbi, panp, PathwaySplice, PCpheno, phantasus, PharmacoGx, phemd, phyloseq, piano, plethy, plgem, plier, podkat, POST, PowerExplorer, ppiStats, prada, prebs, PrInCE, proBatch, proFIA, progeny, pRoloc, pRolocdata, PROMISE, PROPS, ProteomicsAnnotationHubData, PSEA, psygenet2r, puma, pvac, pvca, pwOmics, qcmetrics, QDNAseq, qpgraph, QUALIFIER, quantro, QuasR, qusage, randPack, readat, ReportingTools, restfulSE, RGalaxy, RIVER, Rmagpie, RMassBank, rols, ROTS, rqubic, rScudo, Rtreemix, RUVnormalize, SAGx, scmap, scTGIF, seqc, SeqVarTools, ShortRead, signatureSearchData, SigsPack, sigsquared, SimBindProfiles, simpleaffy, singscore, SLGI, SMITE, SomaticSignatures, spkTools, splicegear, SPONGE, STATegRa, subSeq, synapter, TEQC, TFBSTools, timecourse, TMixClust, TnT, ToPASeq, topdownr, tradeSeq, TTMap, twilight, uSORT, VanillaICE, VariantAnnotation, VariantFiltering, VariantTools, vidger, vulcan, wateRmelon, XBSeq, Xeva, yri1kgv |
| Suggests Me |
AUCell, BiocCaseStudies, BiocCheck, BiocGenerics, BiocOncoTK, biotmleData, breastCancerMAINZ, breastCancerNKI, breastCancerTRANSBIG, breastCancerUNT, breastCancerUPP, breastCancerVDX, BSgenome, ccTutorial, CellMapper, cellTree, clustComp, coseq, CountClust, DAPAR, DART, dcanr, dearseq, dorothea, dyebiasexamples, edgeR, EnMCB, EpiDISH, epivizr, epivizrChart, epivizrStandalone, farms, genefu, GENIE3, GenomicRanges, GSAR, Heatplus, HMP16SData, HMP2Data, interactiveDisplay, kebabs, les, limma, Logolas, M3Drop, mammaPrintData, mAPKLData, mCSEA, messina, methyvimData, msa, multiClust, nem, OSAT, PCAtools, pkgDepTools, RcisTarget, ReactomeGSA, RegParallel, rheumaticConditionWOLLBOLD, ROC, RTCGA, scater, scmeth, scran, SeqArray, seventyGeneData, slinky, stageR, survcomp, TargetScore, TCGAbiolinks, TFutils, TimeSeriesExperiment, tkWidgets, TypeInfo, vbmp, widgetTools, yeastExpData, yeastRNASeq |
| Links To Me |
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| Build Report |
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