This package is for version 3.17 of Bioconductor;
for the stable, up-to-date release version, see
BiocGenerics.
The package defines many S4 generic functions used in Bioconductor.
| biocViews |
Infrastructure, Software |
| Version |
0.46.0 |
| In Bioconductor since |
BioC 2.10 (R-2.15) (11.5 years) |
| License |
Artistic-2.0 |
| Depends |
R (>= 4.0.0), methods, utils, graphics, stats |
| Imports |
methods, utils, graphics, stats |
| LinkingTo |
|
| Suggests |
Biobase, S4Vectors, IRanges, GenomicRanges, DelayedArray, Biostrings, Rsamtools, AnnotationDbi, affy, affyPLM, DESeq2, flowClust, MSnbase, annotate, RUnit |
| SystemRequirements |
|
| Enhances |
|
| URL |
https://bioconductor.org/packages/BiocGenerics |
| BugReports |
https://github.com/Bioconductor/BiocGenerics/issues |
| Depends On Me |
ACME, affy, affyPLM, altcdfenvs, amplican, AnnotationDbi, AnnotationForge, AnnotationHub, ATACseqQC, beadarray, bioassayR, Biobase, Biostrings, bnbc, BSgenome, BSgenomeForge, bsseq, Cardinal, Category, categoryCompare, ChAMPdata, chipseq, ChIPseqR, ChromHeatMap, clusterExperiment, codelink, consensusDE, consensusSeekeR, copynumber, CoreGx, CRISPRseek, cummeRbund, DelayedArray, ensembldb, ensemblVEP, ExperimentHub, ExperimentHubData, GDSArray, geneplotter, GenomeInfoDb, genomeIntervals, GenomicAlignments, GenomicFeatures, GenomicFiles, GenomicRanges, GenomicScores, ggbio, girafe, graph, GSEABase, GUIDEseq, HelloRanges, interactiveDisplay, interactiveDisplayBase, IRanges, ISLET, liftOver, MBASED, MIGSA, MineICA, minfi, MLInterfaces, MotifDb, mpra, MSnbase, multtest, NADfinder, ngsReports, oligo, OrganismDbi, pandaR, plethy, plyranges, profileplyr, PWMEnrich, QSutils, RareVariantVis, REDseq, Repitools, RnBeads, RPA, rsbml, S4Arrays, S4Vectors, ShortRead, simplifyEnrichment, soGGi, SparseArray, spqn, StructuralVariantAnnotation, SummarizedBenchmark, svaNUMT, svaRetro, TEQC, tigre, topdownr, topGO, UNDO, UniProt.ws, updateObject, VanillaICE, VariantAnnotation, VariantFiltering, VCFArray, XVector, yamss |
| Imports Me |
a4Preproc, affycoretools, affylmGUI, alabaster.bumpy, alabaster.ranges, alabaster.se, AllelicImbalance, AneuFinder, annmap, annotate, AnnotationHubData, ArrayExpressHTS, ASpli, ATACseqTFEA, atena, AUCell, autonomics, bambu, bamsignals, BASiCS, batchelor, beachmat, bigmelon, biocGraph, BiocHail, BiocIO, BiocSingular, biotmle, biovizBase, biscuiteer, BiSeq, blima, breakpointR, BrowserViz, BSgenome, BubbleTree, bumphunter, BUSpaRse, CAGEfightR, CAGEr, casper, celaref, CellaRepertorium, CellBench, cellHTS2, CellMixS, CellTrails, cfDNAPro, cghMCR, ChemmineDrugs, ChemmineOB, ChemmineR, ChIC, ChIPComp, chipenrich, chipenrich.data, ChIPpeakAnno, ChIPQC, ChIPseeker, chipseq, chromstaR, chromVAR, cicero, CircSeqAlignTk, clusterSeq, cn.mops, CNEr, CNVPanelizer, CNVRanger, COCOA, cola, compEpiTools, CompoundDb, contiBAIT, crisprBase, crisprBowtie, crisprBwa, crisprDesign, crisprScore, crisprViz, crlmm, crossmeta, csaw, cummeRbund, curatedCRCData, curatedOvarianData, cydar, dada2, dagLogo, DAMEfinder, ddCt, decompTumor2Sig, deconvR, DEGreport, DelayedDataFrame, derfinder, DEScan2, DESeq2, DESpace, destiny, DEWSeq, DEXSeq, diffcoexp, diffHic, DirichletMultinomial, DiscoRhythm, DNAfusion, DRIMSeq, DropletUtils, DrugVsDisease, easyRNASeq, EBImage, EDASeq, eiR, eisaR, enhancerHomologSearch, enrichTF, epialleleR, EpiCompare, epigenomix, epimutacions, epistack, EpiTxDb, epivizrChart, epivizrStandalone, erma, esATAC, exomePeak2, ExpHunterSuite, factR, FamAgg, fastseg, ffpe, FindIT2, FLAMES, flowBin, flowClust, flowCore, flowFP, FlowSOM, flowSpecs, flowStats, flowWorkspace, fmcsR, FRASER, frma, GA4GHclient, GA4GHshiny, gcapc, gDNAinRNAseqData, genbankr, geneAttribution, geneClassifiers, GENESIS, GenomAutomorphism, GenomicAlignments, GenomicInteractions, GenomicTuples, genotypeeval, GenVisR, GeomxTools, GeoMxWorkflows, glmGamPoi, gmapR, gmoviz, goseq, GOTHiC, gpuMagic, Gviz, HDF5Array, heatmaps, hermes, HiCDOC, HiCExperiment, HiContacts, HiLDA, hiReadsProcessor, hopach, HTSeqGenie, icetea, igvR, IHW, IHWpaper, IMAS, infercnv, INSPEcT, InTAD, intansv, InteractionSet, IntEREst, IONiseR, iSEE, IsoformSwitchAnalyzeR, isomiRs, IVAS, KCsmart, KEGGandMetacoreDzPathwaysGEO, KEGGdzPathwaysGEO, ldblock, LinTInd, lisaClust, LOLA, mariner, maser, MAST, matter, MEAL, meshr, MetaboAnnotation, metaMS, metaseqR2, methInheritSim, MethylAid, methylPipe, methylumi, mia, miaViz, microbiomeDataSets, microbiomeMarker, miloR, mimager, MinimumDistance, MIRA, MiRaGE, missMethyl, MMAPPR2, Modstrings, mogsa, monaLisa, monocle, Motif2Site, motifbreakR, MouseGastrulationData, MouseThymusAgeing, msa, MSnID, MultiAssayExperiment, multicrispr, MultiDataSet, multiMiR, MultimodalExperiment, mumosa, MutationalPatterns, mzR, NanoStringNCTools, ncdfFlow, nearBynding, npGSEA, nucleR, NxtIRFcore, ODER, oligoClasses, OmicsLonDA, openCyto, openPrimeR, ORFik, OUTRIDER, parglms, pcaMethods, PDATK, pdInfoBuilder, PharmacoGx, phemd, PhIPData, PhosR, phyloseq, Pi, piano, PING, podkat, pram, primirTSS, proDA, profileScoreDist, pRoloc, pRolocGUI, ProteoDisco, PSMatch, PureCN, pwOmics, QFeatures, qPLEXanalyzer, qsea, QuasR, R3CPET, R453Plus1Toolbox, RadioGx, RaggedExperiment, ramr, ramwas, RCAS, RcisTarget, RCy3, RCyjs, recoup, REMP, ReportingTools, RGMQL, RGSEA, RiboCrypt, RiboDiPA, RiboProfiling, ribosomeProfilingQC, Ringo, RJMCMCNucleosomes, rnaEditr, RNAmodR, RNAmodR.AlkAnilineSeq, RNAmodR.ML, RNAmodR.RiboMethSeq, roar, rols, Rqc, rqubic, Rsamtools, rsbml, rScudo, RTCGAToolbox, rtracklayer, SC3, SCArray.sat, scater, scDblFinder, scmap, SCnorm, SCOPE, scPipe, scran, scRNAseq, scruff, scuttle, SeqVarTools, sevenC, SGSeq, SharedObject, shinyMethyl, signatureSearch, signeR, signifinder, single, SingleCellExperiment, SingleMoleculeFootprinting, sitadela, SNPhood, SNPlocs.Hsapiens.dbSNP144.GRCh37, SNPlocs.Hsapiens.dbSNP144.GRCh38, SNPlocs.Hsapiens.dbSNP149.GRCh38, SNPlocs.Hsapiens.dbSNP150.GRCh38, SNPlocs.Hsapiens.dbSNP155.GRCh37, SNPlocs.Hsapiens.dbSNP155.GRCh38, snpStats, sparrow, SpatialExperiment, SpatialFeatureExperiment, spatialLIBD, spatzie, Spectra, spicyR, splatter, SpliceWiz, SplicingGraphs, SQLDataFrame, sRACIPE, sscu, STAN, standR, strandCheckR, Streamer, Structstrings, SummarizedExperiment, SynMut, systemPipeR, systemPipeRdata, TAPseq, target, TarSeqQC, TCGAutils, TCseq, TENxBUSData, TENxIO, TFBSTools, TitanCNA, ToxicoGx, trackViewer, transcriptR, transite, TransView, TreeSummarizedExperiment, tRNA, tRNAdbImport, tRNAscanImport, TVTB, txcutr, Ularcirc, UMI4Cats, unifiedWMWqPCR, universalmotif, uSORT, VariantTools, VariantToolsData, velociraptor, wavClusteR, weitrix, xcms, XDE, XtraSNPlocs.Hsapiens.dbSNP144.GRCh37, XtraSNPlocs.Hsapiens.dbSNP144.GRCh38, XVector |
| Suggests Me |
acde, aggregateBioVar, AIMS, alabaster.matrix, ASSET, ASURAT, BaalChIP, baySeq, BDMMAcorrect, bigmelon, bigPint, BiocCheck, BiocParallel, BiocStyle, biocViews, BioMM, biosigner, BiRewire, BLMA, BloodGen3Module, bnem, borealis, BUScorrect, BUSseq, CAFE, CAMERA, CancerSubtypes, CausalR, ccrepe, cellmigRation, CellNOptR, CexoR, chihaya, ChIPanalyser, ChIPXpress, CHRONOS, CINdex, cleanUpdTSeq, clipper, clustComp, CNORfeeder, CNORfuzzy, coMET, ConnectivityMap, consensus, cosmiq, COSNet, cpvSNP, DEsubs, DExMA, DMRcaller, DMRcate, ENCODExplorerData, EnhancedVolcano, ENmix, EpiMix, epiNEM, EventPointer, fCCAC, fcScan, fgga, FGNet, FieldEffectCrc, flowCut, flowTime, fmrs, GateFinder, gCrisprTools, gdsfmt, GEM, GeneNetworkBuilder, GeneOverlap, geneplast, geneplast.data, geneRxCluster, geNetClassifier, genomation, GEOquery, GeoTcgaData, GMRP, GOstats, GraphPAC, GreyListChIP, grndata, GSVA, GWASTools, h5vc, Harman, HarmanData, healthyControlsPresenceChecker, hiAnnotator, HiCDCPlus, hierGWAS, HIREewas, HPiP, hypergraph, iCARE, iClusterPlus, IFAA, illuminaio, immunotation, InPAS, INPower, IPO, kebabs, KEGGREST, LACE, MAGAR, magpie, mAPKL, massiR, MatrixQCvis, MatrixRider, MBttest, mCSEA, Mergeomics, Metab, MetaboSignal, metagene, metagene2, metagenomeSeq, MetCirc, methylCC, methylInheritance, MetNet, microbiome, microRNAome, MIGSAdata, miRBaseConverter, miRcomp, mirIntegrator, miRLAB, mnem, mosbi, motifStack, MsQuality, multiClust, MultiMed, multiOmicsViz, MungeSumstats, MWASTools, NBSplice, ncRNAtools, nempi, netbiov, NetSAM, nondetects, NoRCE, nucleoSim, OMICsPCA, OncoScore, PAA, panelcn.mops, Path2PPI, PathNet, pathview, PCAtools, pepXMLTab, phenomis, PhenStat, powerTCR, proBAMr, proFIA, pwrEWAS, pwrEWAS.data, qpgraph, quantro, QuartPAC, RBGL, rBiopaxParser, rcellminer, rCGH, REBET, RegParallel, RESOLVE, rfaRm, RGraph2js, Rgraphviz, rgsepd, riboSeqR, ROntoTools, ropls, ROSeq, RTN, RTNduals, RTNsurvival, rTRM, SAIGEgds, sangerseqR, SANTA, sarks, SCArray, scDataviz, scmeth, scMultiome, scry, segmentSeq, SeqArray, seqPattern, seqTools, sesameData, SICtools, sigFeature, sigsquared, SIMAT, similaRpeak, SIMLR, singleCellTK, SingleR, slingshot, SNPRelate, SpacePAC, sparseDOSSA, SparseSignatures, spatialHeatmap, specL, STATegRa, STRINGdb, SUITOR, systemPipeTools, TCC, TFEA.ChIP, TIN, transcriptogramer, traseR, TreeAndLeaf, trena, tripr, TRONCO, Uniquorn, variancePartition, VERSO, xcore, xcoredata, zenith |
| Links To Me |
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| Build Report |
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