BiocStyle

Suggests BiocGenerics, RUnit, htmltools

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Depends On Me ExpressionAtlas, Pigengene, RPA, iNETgrate, netresponse, sangeranalyseR, org.Mxanthus.db, curatedBreastData, cytofWorkflow, methylationArrayAnalysis, rnaseqGene, RnaSeqGeneEdgeRQL, OSCA, SingleRBook

Imports Me ASpli, BPRMeth, BiocWorkflowTools, BubbleTree, COMPASS, DiscoRhythm, EasyCellType, MSnID, Melissa, PLSDAbatch, PathoStat, PhyloProfile, RegEnrich, Rmmquant, Rqc, SurfR, abseqR, bandle, chimeraviz, geneXtendeR, hdxmsqc, hypeR, meshr, netboost, rebook, regionReport, scMET, scTGIF, scTensor, srnadiff, FieldEffectCrc, PhyloProfileData, GeoMxWorkflows, simpleSingleCell, OHCA, EZtune

Suggests Me ACE, ADAM, ADAMgui, ADImpute, AHMassBank, ALDEx2, AMARETTO, AMOUNTAIN, APAlyzer, APL, ASGSCA, ASICS, ASSIGN, ATACseqQC, ATACseqTFEA, AUCell, AffiXcan, AllelicImbalance, AlpsNMR, AnVILBilling, AnVILPublish, AnVILWorkflow, AnVIL, AneuFinder, AnnotationDbi, AnnotationFilter, AnnotationForge, AnnotationHubData, AnnotationHub, AssessORF, BANDITS, BASiCS, BEARscc, BERT, BEclear, BG2, BOBaFIT, BREW3R.r, BSgenomeForge, BUMHMM, BUScorrect, BUSpaRse, BUSseq, BaalChIP, Banksy, BatchQC, BeadDataPackR, BgeeDB, BindingSiteFinder, BioCartaImage, BioCor, BioNAR, BioNERO, Biobase, BiocBaseUtils, BiocBook, BiocCheck, BiocFHIR, BiocFileCache, BiocHail, BiocHubsShiny, BiocIO, BiocNeighbors, BiocOncoTK, BiocParallel, BiocPkgTools, BiocSet, BiocSingular, BiocSklearn, Biostrings, BridgeDbR, BrowserViz, BumpyMatrix, CAFE, CAGEfightR, CAGEr, CARNIVAL, CATALYST, CBEA, CBNplot, CCPlotR, CDI, CIMICE, CNEr, CNVMetrics, CNVRanger, CNVfilteR, COCOA, CONFESS, CONSTANd, COTAN, CRISPRball, CRISPRseek, CSSQ, CTDquerier, CTSV, CTdata, CTexploreR, CaMutQC, CardinalIO, Cardinal, CellBarcode, CellBench, CellMapper, CellMixS, CelliD, Cepo, CexoR, ChIPQC, ChIPexoQual, ChIPpeakAnno, ChemmineOB, ChemmineR, Chicago, ChromSCape, CircSeqAlignTk, CiteFuse, ClassifyR, ClustAll, ClustIRR, ClusterFoldSimilarity, ClusterSignificance, CoGAPS, Cogito, CompoundDb, CopyNumberPlots, CoreGx, CrispRVariants, CyTOFpower, CytoGLMM, CytoMDS, CytoPipelineGUI, CytoPipeline, DAMEfinder, DAPAR, DCATS, DEFormats, DEGreport, DELocal, DEP, DEScan2, DESpace, DEWSeq, DEXSeq, DExMA, DIAlignR, DMCFB, DMRScan, DNABarcodeCompatibility, DNABarcodes, DNAfusion, DRIMSeq, DSS, DaMiRseq, Damsel, DeProViR, DegCre, DelayedArray, DelayedDataFrame, DelayedMatrixStats, DelayedRandomArray, DelayedTensor, DepInfeR, DepecheR, DiffBind, DifferentialRegulation, Dino, Doscheda, DropletUtils, EBImage, EDASeq, EGSEA, ELMER, ENmix, ERSSA, EWCE, EasyCellType, EmpiricalBrownsMethod, EnrichmentBrowser, EpiDISH, EpiMix, EpiTxDb, EventPointer, ExperimentHubData, ExperimentHub, ExperimentSubset, ExploreModelMatrix, FEAST, FELLA, FLAMES, FRASER, FamAgg, FastqCleaner, FeatSeekR, FilterFFPE, FindIT2, FlowSOM, FuseSOM, GA4GHclient, GA4GHshiny, GARS, GBScleanR, GDSArray, GENESIS, GENIE3, GGPA, GMRP, GNOSIS, GOexpress, GOfuncR, GOpro, GOstats, GRaNIE, GRmetrics, GSAR, GSEABase, GSEABenchmarkeR, GSEAmining, GSVA, GSgalgoR, GUIDEseq, GWAS.BAYES, GWASTools, GWENA, GeDi, GenVisR, GeneExpressionSignature, GeneNetworkBuilder, GeneOverlap, GeneStructureTools, GeneTonic, GenomAutomorphism, GenomeInfoDb, GenomicAlignments, GenomicDataCommons, GenomicDistributions, GenomicFeatures, GenomicFiles, GenomicInteractionNodes, GenomicInteractions, GenomicPlot, GenomicRanges, GenomicScores, GenomicSuperSignature, GenomicTuples, GladiaTOX, Glimma, GloScope, GrafGen, GreyListChIP, Gviz, HGC, HIREewas, HPAanalyze, HPiP, HTSFilter, Harman, HelloRanges, Herper, HiCBricks, HiCDOC, HiCExperiment, HiContacts, HiCool, HiLDA, HiTC, HumanTranscriptomeCompendium, HybridExpress, IFAA, IHW, ILoReg, IMAS, INSPEcT, INTACT, IONiseR, IRanges, ISAnalytics, ISLET, IVAS, IgGeneUsage, InPAS, InTAD, Informeasure, InterCellar, InterMineR, InteractionSet, IsoBayes, IsoCorrectoRGUI, IsoCorrectoR, LACE, LOLA, LRBaseDbi, LRcell, LinkHD, Linnorm, LoomExperiment, MACSr, MAGeCKFlute, MAI, MAPFX, MAST, MBASED, MBECS, MBttest, MCbiclust, MEAL, MEAT, MEDIPS, MEIGOR, MGnifyR, MICSQTL, MIRA, MIRit, MLInterfaces, MMDiff2, MMUPHin, MODA, MOFA2, MOMA, MOSim, MSA2dist, MSPrep, MSnbase, MSstatsLOBD, MSstatsLiP, MSstatsTMT, MSstats, MWASTools, Macarron, MassSpecWavelet, MatrixQCvis, MatrixRider, MetNet, MetaPhOR, MetaboAnnotation, MetaboCoreUtils, MetaboSignal, MethPed, MethReg, MethylAid, MethylMix, Modstrings, MoleculeExperiment, Moonlight2R, MoonlightR, Motif2Site, MotifDb, MouseFM, MsBackendMassbank, MsBackendMgf, MsBackendMsp, MsBackendRawFileReader, MsBackendSql, MsCoreUtils, MsDataHub, MsExperiment, MsFeatures, MsQuality, MuData, MultiAssayExperiment, MultiBaC, MultiDataSet, MultiRNAflow, MultimodalExperiment, MungeSumstats, MutationalPatterns, NADfinder, NPARC, NanoMethViz, NanoStringDiff, Nebulosa, NetActivity, NetPathMiner, NeuCA, NewWave, NormalyzerDE, OPWeight, ORFhunteR, ORFik, OUTRIDER, OVESEG, Omixer, OmnipathR, OncoScore, OncoSimulR, Organism.dplyr, OrganismDbi, Oscope, OutSplice, PAA, PAIRADISE, PCAN, PDATK, PIPETS, PIUMA, POMA, POWSC, PSMatch, PWMEnrich, PanViz, PanomiR, Path2PPI, PeacoQC, Pedixplorer, PepsNMR, PhIPData, PharmacoGx, PhosR, PoDCall, PrInCE, Prostar, ProteoDisco, ProteoMM, PureCN, QDNAseq, QFeatures, QSutils, QTLExperiment, Qtlizer, QuasR, R3CPET, RAIDS, RAREsim, RBGL, RBioFormats, RCSL, RCX, RCy3, RCyjs, RESOLVE, RGMQL, RGSEA, RGraph2js, RIVER, RJMCMCNucleosomes, RNAmodR.AlkAnilineSeq, RNAmodR.ML, RNAmodR.RiboMethSeq, RNAmodR, RNAseqCovarImpute, ROC, ROCpAI, RTCGAToolbox, RTN, RTNduals, RTNsurvival, RUVSeq, RVS, RadioGx, RaggedExperiment, Rarr, Rbowtie, Rbwa, RcisTarget, Rcollectl, RcwlPipelines, Rcwl, ReUseData, ReactomePA, RedeR, RedisParam, RegionalST, ResidualMatrix, Rfastp, RgnTX, Rhdf5lib, Rhisat2, Rhtslib, RiboCrypt, RiboProfiling, RnaSeqSampleSize, Rnits, Rsamtools, Rtpca, Rvisdiff, S4Arrays, S4Vectors, SC3, SCArray.sat, SCFA, SCnorm, SEtools, SGCP, SGSeq, SIAMCAT, SIMD, SIMLR, SMAD, SNPediaR, SNPhood, SOMNiBUS, SPIAT, SPLINTER, SPOTlight, SPsimSeq, SQLDataFrame, STATegRa, STdeconvolve, SUITOR, SVMDO, ScaledMatrix, ScreenR, SeqGate, SeqSQC, SeqVarTools, SharedObject, ShortRead, SiPSiC, SigCheck, SigFuge, SigsPack, SimFFPE, SingleCellAlleleExperiment, SingleCellExperiment, SingleR, SpaceMarkers, SparseArray, SparseSignatures, SpatialCPie, SpatialExperiment, SpatialFeatureExperiment, Spectra, SpectralTAD, SpotClean, SpotSweeper, Statial, Structstrings, SubCellBarCode, SummarizedExperiment, SynExtend, TADCompare, TAPseq, TBSignatureProfiler, TCGAbiolinks, TCGAutils, TDbasedUFE, TDbasedUFEadv, TEKRABber, TENxIO, TFARM, TFBSTools, TFHAZ, TFutils, TMixClust, TOAST, TOP, TPP2D, TPP, TREG, TRONCO, TTMap, TVTB, TargetDecoy, TargetSearch, TileDBArray, ToxicoGx, TrajectoryUtils, TreeAndLeaf, TreeSummarizedExperiment, Trendy, TurboNorm, UCSC.utils, UCell, UMI4Cats, UPDhmm, Ularcirc, UniProt.ws, VCFArray, VDJdive, VERSO, VariantAnnotation, VariantExperiment, VariantFiltering, ViSEAGO, VisiumIO, Voyager, XNAString, Xeva, YAPSA, ZygosityPredictor, affycoretools, aggregateBioVar, alabaster.base, alabaster.bumpy, alabaster.files, alabaster.mae, alabaster.matrix, alabaster.ranges, alabaster.sce, alabaster.schemas, alabaster.se, alabaster.spatial, alabaster.string, alabaster.vcf, alabaster, alevinQC, amplican, animalcules, annotate, annotationTools, annotatr, arrayQualityMetrics, artMS, atSNP, atena, autonomics, awst, bacon, bamsignals, banocc, barcodetrackR, basecallQC, basilisk.utils, basilisk, batchelor, bayNorm, baySeq, beachmat.hdf5, beachmat, beadarray, beer, benchdamic, betaHMM, bettr, bigmelon, bioCancer, bioassayR, biobtreeR, biocViews, biocroxytest, biocthis, biodbChebi, biodbExpasy, biodbHmdb, biodbKegg, biodbLipidmaps, biodbNcbi, biodbNci, biodbUniprot, biodb, biomaRt, biomformat, biosigner, biotmle, biscuiteer, blacksheepr, blima, bluster, bnbc, bnem, borealis, branchpointer, breakpointR, brendaDb, bsseq, bugsigdbr, cBioPortalData, cageminer, canceR, cardelino, cbaf, cbpManager, ccImpute, ccfindR, ccrepe, celda, cellbaseR, cellity, cellxgenedp, censcyt, cfDNAPro, cfTools, cfdnakit, chihaya, chipenrich, chipseq, chromstaR, cleanUpdTSeq, cleaver, clevRvis, cliProfiler, clipper, clusterExperiment, clusterSeq, clustifyr, cmapR, coMethDMR, coRdon, cogeqc, comapr, compSPOT, compcodeR, concordexR, consICA, consensusOV, consensusSeekeR, conumee, corral, coseq, cosmiq, covRNA, cpvSNP, crisprBase, crisprBowtie, crisprBwa, crisprDesign, crisprScore, crisprShiny, crisprVerse, crisprViz, csaw, csdR, ctsGE, customCMPdb, cydar, cypress, cytoKernel, cytomapper, cytoviewer, dStruct, dada2, dagLogo, dcanr, dce, ddPCRclust, debCAM, decompTumor2Sig, decontX, decontam, deconvR, decoupleR, demuxSNP, demuxmix, densvis, derfinderHelper, derfinderPlot, derfinder, diffUTR, diffcyt, diffuStats, dir.expiry, discordant, distinct, dittoSeq, dmrseq, doppelgangR, doseR, doubletrouble, drawProteins, dreamlet, drugTargetInteractions, dupRadar, easier, easyRNASeq, easylift, easyreporting, edgeR, eiR, eisaR, enrichViewNet, ensembldb, epiNEM, epigraHMM, epimutacions, epiregulon.extra, epiregulon, epistack, epistasisGA, epivizrChart, epivizrData, epivizrServer, epivizrStandalone, epivizr, erma, escape, escheR, evaluomeR, extraChIPs, fCCAC, fCI, faers, famat, fastreeR, fastseg, fcScan, fenr, fgga, findIPs, flowAI, flowGraph, flowSpecs, flowcatchR, fmcsR, fobitools, gDNAx, gDR, gDRcore, gDRimport, gDRstyle, gDRutils, gINTomics, gatom, gcapc, gemma.R, genefilter, genefu, geneplast, geneplotter, gg4way, ggbio, ggkegg, ggmanh, ggmsa, ggspavis, ggtreeSpace, glmGamPoi, glmSparseNet, gmoviz, goSTAG, goSorensen, gpuMagic, granulator, graper, graph, graphite, groHMM, gscreend, gwascat, gwasurvivr, gypsum, hca, hermes, hicVennDiagram, hipathia, hoodscanR, hpar, hummingbird, iGC, iPath, iSEE, iSEEde, iSEEfier, iSEEhex, iSEEhub, iSEEindex, iSEEpathways, iSEEu, ideal, igvR, igvShiny, illuminaio, imcRtools, immunoClust, immunotation, infercnv, isomiRs, ivygapSE, karyoploteR, katdetectr, kissDE, ldblock, lefser, lemur, levi, limma, limpca, lineagespot, lipidr, lisaClust, loci2path, lpsymphony, lute, m6Aboost, mCSEA, made4, magpie, magrene, marr, maser, mastR, matter, mbQTL, mbkmeans, megadepth, messina, metabCombiner, metabinR, metabolomicsWorkbenchR, metagene2, metapod, metaseqR2, methInheritSim, methimpute, methodical, methyLImp2, methylCC, methylInheritance, methylSig, methylclock, methylscaper, mfa, miQC, miRSM, miRcomp, miRspongeR, miaSim, miaViz, mia, microSTASIS, microbiomeMarker, microbiome, miloR, mimager, minfi, mirTarRnaSeq, missMethyl, missRows, mistyR, mixOmics, mnem, moanin, mobileRNA, mogsa, monaLisa, mosbi, mosdef, motifStack, motifTestR, motifbreakR, mpra, msImpute, msPurity, mslp, msqrob2, multiGSEA, multiHiCcompare, multiMiR, multiWGCNA, multicrispr, multistateQTL, mumosa, muscat, musicatk, mygene, myvariant, mzR, ncGTW, ncRNAtools, ndexr, nempi, netDx, netSmooth, nethet, netprioR, ngsReports, nipalsMCIA, nnSVG, normr, npGSEA, nucleR, nucleoSim, oligo, omicRexposome, omicade4, omicsPrint, omicsViewer, oncoscanR, ontoProc, optimalFlow, orthogene, orthos, pRolocGUI, pRoloc, packFinder, padma, pairedGSEA, pairkat, pareg, parglms, parody, partCNV, pathlinkR, paxtoolsr, pcaExplorer, peakPantheR, pfamAnalyzeR, pgxRpi, phantasusLite, phantasus, phenomis, phenopath, philr, phyloseq, piano, pipeComp, planttfhunter, plasmut, plotGrouper, plyinteractions, plyranges, pmp, pogos, powerTCR, ppcseq, pqsfinder, pram, preciseTAD, proDA, profileScoreDist, profileplyr, progeny, projectR, proteasy, psygenet2r, ptairMS, qcmetrics, qmtools, qpgraph, qsea, qsmooth, qsvaR, quantiseqr, quantro, rCGH, rSWeeP, rScudo, rTRM, rWikiPathways, raer, rain, ramwas, randRotation, rawDiag, rawrr, rcellminer, recount3, recount, recountmethylation, recoup, regionalpcs, regioneR, regioneReloaded, regsplice, regutools, retrofit, rexposome, rfPred, rfaRm, rgoslin, rhdf5, rhdf5client, rhdf5filters, riboSeqR, ribosomeProfilingQC, rifiComparative, rifi, rmspc, rnaseqcomp, roastgsa, rols, ropls, rprimer, rpx, rrvgo, rsemmed, sRACIPE, sSNAPPY, sampleClassifier, sangerseqR, satuRn, scBubbletree, scCB2, scClassify, scDD, scDDboost, scDblFinder, scDesign3, scFeatureFilter, scFeatures, scMerge, scMitoMut, scPCA, scPipe, scRNAseqApp, scReClassify, scRepertoire, scTHI, scTreeViz, scanMiRApp, scanMiR, scater, sccomp, scds, scifer, scmap, scone, scoreInvHap, scp, scran, screenCounter, scruff, scuttle, scviR, sechm, segmentSeq, selectKSigs, seq.hotSPOT, seqArchR, seqArchRplus, seqCAT, seqLogo, seqPattern, seqsetvis, sesame, sevenC, shinyMethyl, shinyepico, signatureSearch, signifinder, simPIC, similaRpeak, simpleSeg, sincell, singleCellTK, single, singscore, sitadela, sitePath, sketchR, slalom, slingshot, smartid, smoothclust, snapcount, snifter, soGGi, spaSim, sparrow, sparseMatrixStats, sparsenetgls, spatialDE, spatialHeatmap, specL, speckle, spicyR, spillR, splatter, splots, spqn, srnadiff, ssrch, stJoincount, stageR, statTarget, strandCheckR, structToolbox, struct, svaRetro, sva, swfdr, switchde, synapsis, synapter, synlet, syntenet, systemPipeR, systemPipeShiny, systemPipeTools, tRNA, tRNAdbImport, tRNAscanImport, tadar, tanggle, tenXplore, terraTCGAdata, tidyCoverage, tidySingleCellExperiment, tidySpatialExperiment, tidySummarizedExperiment, tidybulk, tigre, timeOmics, tomoda, tomoseqr, topconfects, topdownr, tpSVG, trackViewer, tracktables, transcriptR, transcriptogramer, transformGamPoi, transmogR, transomics2cytoscape, treeclimbR, treekoR, tricycle, tripr, twoddpcr, txcutr, txdbmaker, uncoverappLib, updateObject, variancePartition, velociraptor, vidger, vissE, vsclust, vsn, wateRmelon, wavClusteR, weitrix, wpm, xcms, xcore, yamss, zellkonverter, zenith, zinbwave, zlibbioc, AHEnsDbs, AHLRBaseDbs, AHMeSHDbs, AHPathbankDbs, AHPubMedDbs, AHWikipathwaysDbs, AlphaMissense.v2023.hg19, AlphaMissense.v2023.hg38, ath1121501frmavecs, cadd.v1.6.hg19, cadd.v1.6.hg38, CTCF, EpiTxDb.Hs.hg38, EpiTxDb.Mm.mm10, EpiTxDb.Sc.sacCer3, EuPathDB, excluderanges, geneplast.data, GenomicState, hpAnnot, JASPAR2022, JASPAR2024, phastCons35way.UCSC.mm39, phyloP35way.UCSC.mm39, rat2302frmavecs, SomaScan.db, synaptome.data, UCSCRepeatMasker, ASICSdata, AssessORFData, benchmarkfdrData2019, BioImageDbs, BioPlex, blimaTestingData, BloodCancerMultiOmics2017, bodymapRat, brgedata, CardinalWorkflows, celldex, CellMapperData, cfToolsData, chipenrich.data, ChIPexoQualExample, chipseqDBData, CLLmethylation, clustifyrdatahub, CopyhelpeR, CoSIAdata, COSMIC.67, crisprScoreData, curatedBladderData, curatedCRCData, curatedMetagenomicData, curatedOvarianData, curatedPCaData, curatedTBData, curatedTCGAData, CytoMethIC, DAPARdata, depmap, derfinderData, DExMAdata, DmelSGI, DNAZooData, dorothea, DropletTestFiles, DuoClustering2018, easierData, ELMER.data, emtdata, epimutacionsData, ewceData, fourDNData, furrowSeg, gDNAinRNAseqData, gDRtestData, GenomicDistributionsData, GeuvadisTranscriptExpr, GSE103322, GSE13015, GSE159526, GSE62944, HarmanData, HCAData, HCATonsilData, HD2013SGI, HDCytoData, healthyControlsPresenceChecker, HelloRangesData, HiCDataHumanIMR90, HiContactsData, HighlyReplicatedRNASeq, Hiiragi2013, HMP16SData, HMP2Data, HumanAffyData, IHWpaper, imcdatasets, JohnsonKinaseData, LRcellTypeMarkers, mCSEAdata, mcsurvdata, MerfishData, MetaGxOvarian, MetaGxPancreas, MetaScope, MethylAidData, methylclockData, MethylSeqData, MicrobiomeBenchmarkData, microbiomeDataSets, minionSummaryData, MMAPPR2data, MOFAdata, MouseAgingData, MouseGastrulationData, MouseThymusAgeing, msigdb, MSMB, msqc1, multiWGCNAdata, muscData, nanotubes, NestLink, NetActivityData, OnassisJavaLibs, optimalFlowData, orthosData, parathyroidSE, pasilla, PasillaTranscriptExpr, PCHiCdata, PepsNMRData, preciseTADhub, ptairData, raerdata, rcellminerData, restfulSEData, RforProteomics, RGMQLlib, RLHub, RNAmodR.Data, RnaSeqSampleSizeData, sampleClassifierData, scaeData, scanMiRData, scATAC.Explorer, SCLCBam, scMultiome, scpdata, scRNAseq, seventyGeneData, SFEData, SimBenchData, Single.mTEC.Transcriptomes, SingleCellMultiModal, smokingMouse, SpatialDatasets, spatialDmelxsim, spatialLIBD, STexampleData, SubcellularSpatialData, systemPipeRdata, TabulaMurisData, TabulaMurisSenisData, tartare, TCGAbiolinksGUI.data, TCGAWorkflowData, TENxBrainData, TENxBUSData, TENxPBMCData, TENxVisiumData, TENxXeniumData, timecoursedata, TimerQuant, tissueTreg, TMExplorer, TransOmicsData, tuberculosis, tweeDEseqCountData, VariantToolsData, VectraPolarisData, WeberDivechaLCdata, zebrafishRNASeq, annotation, arrays, BiocMetaWorkflow, CAGEWorkflow, chipseqDB, csawUsersGuide, EGSEA123, ExpressionNormalizationWorkflow, generegulation, highthroughputassays, liftOver, maEndToEnd, recountWorkflow, RNAseq123, seqpac, sequencing, SingscoreAMLMutations, spicyWorkflow, variants, BiocBookDemo, aIc, asteRisk, BiocManager, corrmeta, cyjShiny, DEHOGT, EHRtemporalVariability, genetic.algo.optimizeR, ggBubbles, GSEMA, ipsRdbs, magmaR, MarZIC, multiclassPairs, MVN, net4pg, NutrienTrackeR, openSkies, PlackettLuce, Rediscover, rjsoncons, rworkflows, SCIntRuler, SNPassoc, StepReg, TFactSR

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