This package is for version 3.10 of Bioconductor;
for the stable, up-to-date release version, see
BiocGenerics.
The package defines S4 generic functions used in Bioconductor.
| biocViews |
Infrastructure, Software |
| Version |
0.32.0 |
| In Bioconductor since |
BioC 2.10 (R-2.15) (8 years) |
| License |
Artistic-2.0 |
| Depends |
R (>= 3.6.0), methods, utils, graphics, stats, parallel |
| Imports |
methods, utils, graphics, stats, parallel |
| LinkingTo |
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| Suggests |
Biobase, S4Vectors, IRanges, GenomicRanges, DelayedArray, Biostrings, Rsamtools, AnnotationDbi, oligoClasses, oligo, affyPLM, flowClust, affy, DESeq2, MSnbase, annotate, RUnit |
| SystemRequirements |
|
| Enhances |
|
| URL |
|
| Depends On Me |
ACME, affy, affyPLM, altcdfenvs, amplican, AnnotationDbi, AnnotationForge, AnnotationHub, ATACseqQC, beadarray, bioassayR, Biobase, Biostrings, bnbc, BSgenome, bsseq, Cardinal, Category, categoryCompare, ChAMPdata, chipseq, ChIPseqR, ChromHeatMap, cleanUpdTSeq, clusterExperiment, codelink, consensusDE, consensusSeekeR, copynumber, CRISPRseek, cummeRbund, DelayedArray, DESeq, dexus, ensembldb, ensemblVEP, ExperimentHub, ExperimentHubData, FEM, GDSArray, geneplotter, GenomeInfoDb, genomeIntervals, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges, GenomicScores, Genominator, genoset, ggbio, girafe, graph, GSEABase, GUIDEseq, HelloRanges, interactiveDisplay, interactiveDisplayBase, IRanges, liftOver, MBASED, MeSHDbi, methyAnalysis, MIGSA, MineICA, minfi, MLInterfaces, MotifDb, MotIV, mpra, MSnbase, multtest, NADfinder, ngsReports, oligo, OrganismDbi, pandaR, Pbase, PICS, plethy, plyranges, PoTRA, profileplyr, PSICQUIC, PWMEnrich, QSutils, RareVariantVis, REDseq, Repitools, RNAprobR, RnBeads, RPA, rsbml, S4Vectors, scsR, shinyMethyl, ShortRead, simpleaffy, simulatorZ, soGGi, StructuralVariantAnnotation, SummarizedBenchmark, TEQC, tigre, topdownr, topGO, UNDO, UniProt.ws, VanillaICE, VariantAnnotation, VariantFiltering, VCFArray, XVector, yamss |
| Imports Me |
affycoretools, affylmGUI, AllelicImbalance, AneuFinder, annmap, annotate, AnnotationHubData, ArrayExpressHTS, ASpli, AUCell, bamsignals, BASiCS, batchelor, beachmat, bigmelon, biocGraph, BiocSingular, biosvd, biotmle, biovizBase, biscuiteer, BiSeq, blima, breakpointR, BrowserViz, BSgenome, BubbleTree, bumphunter, CAGEfightR, CAGEr, casper, celaref, cellHTS2, CellMixS, CellTrails, cgdv17, cghMCR, ChemmineDrugs, ChemmineOB, ChemmineR, ChIC, ChIPComp, chipenrich, chipenrich.data, ChIPpeakAnno, ChIPQC, ChIPseeker, chipseq, ChIPSeqSpike, chromstaR, chromVAR, cicero, clusterSeq, cn.mops, CNEr, cobindR, COCOA, cola, compEpiTools, contiBAIT, crlmm, crossmeta, csaw, cummeRbund, curatedCRCData, curatedOvarianData, cydar, dada2, dagLogo, ddCt, decompTumor2Sig, DEGreport, DelayedDataFrame, derfinder, DEScan2, DESeq2, destiny, DEWSeq, DEXSeq, diffcoexp, diffHic, DirichletMultinomial, DiscoRhythm, DRIMSeq, DrugVsDisease, easyRNASeq, EBImage, EDASeq, eiR, eisa, enrichTF, epigenomix, epivizrChart, epivizrStandalone, erma, esATAC, FamAgg, fastseg, ffpe, FindMyFriends, flowBin, flowClust, flowCore, flowFP, FlowSOM, flowSpecs, flowStats, flowWorkspace, fmcsR, frma, FunciSNP, GA4GHclient, GA4GHshiny, gcapc, gCMAPWeb, genbankr, geneAttribution, geneClassifiers, genefilter, GENESIS, GenomicAlignments, GenomicInteractions, GenomicTuples, genotypeeval, GenVisR, GGBase, GGtools, gmapR, goseq, GOTHiC, gpuMagic, gQTLBase, gQTLstats, GSVA, Gviz, gwascat, HDF5Array, heatmaps, HiLDA, hiReadsProcessor, hopach, HTSeqGenie, icetea, igvR, IHW, IHWpaper, IMAS, infercnv, INSPEcT, InTAD, intansv, InteractionSet, IntEREst, IONiseR, iSEE, isomiRs, IVAS, JunctionSeq, KCsmart, KEGGandMetacoreDzPathwaysGEO, KEGGdzPathwaysGEO, ldblock, ldblock, LOLA, LVSmiRNA, M3D, maser, MAST, matter, MEAL, meshr, metaMS, methInheritSim, MethylAid, methylPipe, methylumi, methyvim, mimager, MinimumDistance, MIRA, MiRaGE, MMAPPR2, Modstrings, mogsa, monocle, motifbreakR, MouseGastrulationData, msa, MTseeker, MultiAssayExperiment, MultiDataSet, multiMiR, MutationalPatterns, mzR, NarrowPeaks, ncdfFlow, npGSEA, nucleR, oligoClasses, OmicsLonDA, openCyto, openPrimeR, ORFik, OUTRIDER, parglms, PathwaySplice, pcaMethods, pdInfoBuilder, phemd, phyloseq, piano, PING, plrs, podkat, prada, pram, primirTSS, proDA, profileScoreDist, pRoloc, PureCN, pwOmics, qPLEXanalyzer, qsea, QuasR, R3CPET, R453Plus1Toolbox, RaggedExperiment, ramwas, Rariant, RCAS, RcisTarget, RCy3, RCyjs, recoup, REDseq, RefNet, REMP, ReportingTools, RGalaxy, RGMQL, RGSEA, RiboProfiling, Ringo, RJMCMCNucleosomes, RNAmodR, RNAmodR.AlkAnilineSeq, RNAmodR.ML, RNAmodR.RiboMethSeq, roar, rols, Rqc, rqubic, Rsamtools, rsbml, rScudo, RTCGAToolbox, rtracklayer, SC3, scater, scmap, SCnorm, scPipe, scran, scRNAseq, scruff, sevenC, SGSeq, SharedObject, signeR, simpleaffy, SingleCellExperiment, SLGI, SNPhood, SNPlocs.Hsapiens.dbSNP144.GRCh37, SNPlocs.Hsapiens.dbSNP144.GRCh38, SNPlocs.Hsapiens.dbSNP149.GRCh38, SNPlocs.Hsapiens.dbSNP150.GRCh38, SNPlocs.Hsapiens.dbSNP151.GRCh38, snpStats, SparseSignatures, splatter, SplicingGraphs, SQLDataFrame, sRACIPE, sscu, STAN, strandCheckR, Streamer, Structstrings, SummarizedExperiment, SynMut, systemPipeR, systemPipeRdata, target, TarSeqQC, TCGAutils, TCseq, TENxBUSData, TFBSTools, TitanCNA, trackViewer, transcriptR, transite, TransView, triform, tRNA, tRNAdbImport, tRNAscanImport, TSRchitect, TVTB, Ularcirc, unifiedWMWqPCR, universalmotif, uSORT, VariantTools, VariantToolsData, wavClusteR, xcms, XDE, XtraSNPlocs.Hsapiens.dbSNP144.GRCh37, XtraSNPlocs.Hsapiens.dbSNP144.GRCh38, XVector |
| Suggests Me |
acde, AIMS, ArrayTV, ASSET, BaalChIP, baySeq, BDMMAcorrect, bigmelon, bigmemoryExtras, bigPint, BiocCheck, BiocParallel, BiocStyle, biocViews, BioMM, biosigner, BiRewire, BLMA, BUScorrect, CAFE, CAMERA, CancerSubtypes, CAnD, CausalR, ccrepe, CellNOptR, CexoR, ChIPanalyser, ChIPXpress, CHRONOS, CINdex, clipper, clonotypeR, clustComp, CNORfeeder, CNORfuzzy, CNVPanelizer, coexnet, coMET, ConnectivityMap, consensus, cosmiq, COSNet, cpvSNP, DAPAR, DBChIP, DEsubs, DMRcaller, DMRcate, ENCODExplorer, ENCODExplorerData, EnhancedVolcano, ENmix, epiNEM, EventPointer, fCCAC, fcScan, FGNet, flowCL, FlowRepositoryR, flowSpy, flowTime, focalCall, GateFinder, gCMAP, gCrisprTools, gdsfmt, GEM, GeneNetworkBuilder, GeneOverlap, geneplast, geneRxCluster, geNetClassifier, genomation, GEOquery, GMRP, GOstats, GraphPAC, GreyListChIP, grndata, GWASTools, h5vc, Harman, HarmanData, hiAnnotator, hierGWAS, HIREewas, hypergraph, iCARE, iClusterPlus, illuminaio, InPAS, INPower, IPO, kebabs, KEGGREST, LINC, LRBase.Ath.eg.db, LRBase.Bta.eg.db, LRBase.Cel.eg.db, LRBase.Dme.eg.db, LRBase.Dre.eg.db, LRBase.Gga.eg.db, LRBase.Hsa.eg.db, LRBase.Mmu.eg.db, LRBase.Pab.eg.db, LRBase.Rno.eg.db, LRBase.Ssc.eg.db, LRBase.Xtr.eg.db, LRBaseDbi, mAPKL, massiR, MatrixRider, MBttest, mCSEA, mdgsa, Mergeomics, MeSH.Aca.eg.db, MeSH.Aga.PEST.eg.db, MeSH.Ame.eg.db, MeSH.Aml.eg.db, MeSH.Ana.eg.db, MeSH.Ani.FGSC.eg.db, MeSH.AOR.db, MeSH.Ath.eg.db, MeSH.Bfl.eg.db, MeSH.Bsu.168.eg.db, MeSH.Bta.eg.db, MeSH.Cal.SC5314.eg.db, MeSH.Cbr.eg.db, MeSH.Cel.eg.db, MeSH.Cfa.eg.db, MeSH.Cin.eg.db, MeSH.Cja.eg.db, MeSH.Cpo.eg.db, MeSH.Cre.eg.db, MeSH.Dan.eg.db, MeSH.db, MeSH.Dda.3937.eg.db, MeSH.Ddi.AX4.eg.db, MeSH.Der.eg.db, MeSH.Dgr.eg.db, MeSH.Dme.eg.db, MeSH.Dmo.eg.db, MeSH.Dpe.eg.db, MeSH.Dre.eg.db, MeSH.Dse.eg.db, MeSH.Dsi.eg.db, MeSH.Dvi.eg.db, MeSH.Dya.eg.db, MeSH.Eco.55989.eg.db, MeSH.Eco.ED1a.eg.db, MeSH.Eco.IAI39.eg.db, MeSH.Eco.K12.MG1655.eg.db, MeSH.Eco.O157.H7.Sakai.eg.db, MeSH.Eco.UMN026.eg.db, MeSH.Eqc.eg.db, MeSH.Gga.eg.db, MeSH.Gma.eg.db, MeSH.Hsa.eg.db, MeSH.Laf.eg.db, MeSH.Lma.eg.db, MeSH.Mdo.eg.db, MeSH.Mes.eg.db, MeSH.Mga.eg.db, MeSH.Miy.eg.db, MeSH.Mml.eg.db, MeSH.Mmu.eg.db, MeSH.Mtr.eg.db, MeSH.Nle.eg.db, MeSH.Oan.eg.db, MeSH.Ocu.eg.db, MeSH.Oni.eg.db, MeSH.Osa.eg.db, MeSH.Pab.eg.db, MeSH.Pae.PAO1.eg.db, MeSH.PCR.db, MeSH.Pfa.3D7.eg.db, MeSH.Pto.eg.db, MeSH.Ptr.eg.db, MeSH.Rno.eg.db, MeSH.Sce.S288c.eg.db, MeSH.Sco.A32.eg.db, MeSH.Sil.eg.db, MeSH.Spu.eg.db, MeSH.Ssc.eg.db, MeSH.Syn.eg.db, MeSH.Tbr.9274.eg.db, MeSH.Tgo.ME49.eg.db, MeSH.Tgu.eg.db, MeSH.Vvi.eg.db, MeSH.Xla.eg.db, MeSH.Xtr.eg.db, MeSH.Zma.eg.db, Metab, MetaboSignal, metagene, metagene2, metagenomeSeq, metaseqR, MetCirc, methylCC, methylInheritance, MetNet, microbiome, microRNAome, MIGSAdata, miRBaseConverter, miRcomp, mirIntegrator, miRLAB, Mirsynergy, mnem, motifStack, MSnID, multiClust, MultiMed, multiOmicsViz, MWASTools, NBSplice, netbenchmark, netbiov, NetSAM, nondetects, nucleoSim, OMICsPCA, OncoScore, PAA, panelcn.mops, Path2PPI, pathview, PCAtools, pepXMLTab, PGA, PhenStat, powerTCR, Prize, proBAMr, proFIA, proteoQC, pwrEWAS, pwrEWAS.data, qpgraph, quantro, QuartPAC, RBGL, rBiopaxParser, Rcade, rcellminer, rCGH, Rcpi, REBET, RegParallel, RGraph2js, Rgraphviz, rgsepd, riboSeqR, ROntoTools, ropls, RTN, RTNduals, RTNsurvival, rTRM, SAIGEgds, samExploreR, sangerseqR, SANTA, sapFinder, scmeth, segmentSeq, SeqArray, seqPattern, seqTools, SeqVarTools, sesameData, SICtools, sigFeature, sigsquared, SIMAT, similaRpeak, SIMLR, SingleR, slingshot, SNPRelate, sojourner, SpacePAC, sparseDOSSA, specL, STATegRa, STRINGdb, TCC, TFEA.ChIP, TIN, transcriptogramer, traseR, trena, TRONCO, Uniquorn, variancePartition |
| Links To Me |
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| Build Report |
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