BiocStyle

Suggests BiocGenerics, RUnit, htmltools

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Depends On Me chipseqDB, curatedBreastData, methylationArrayAnalysis, rnaseqGene, simpleSingleCell

Imports Me abseqR, ASpli, BiocWorkflowTools, BPRMeth, BubbleTree, chimeraviz, COMPASS, cytofWorkflow, geneXtendeR, PathoStat, regionReport, Rmmquant, Rqc, srnadiff

Suggests Me ABAData, ABAEnrichment, ACE, adaptest, AffiXcan, affycoretools, AHEnsDbs, AllelicImbalance, allenpvc, AMOUNTAIN, amplican, AneuFinder, annotation, AnnotationDbi, AnnotationFilter, AnnotationForge, AnnotationHub, AnnotationHubData, annotatr, anota2seq, arrayQualityMetrics, arrays, artMS, ASGSCA, ASICS, ASICSdata, AssessORF, AssessORFData, ASSIGN, ATACseqQC, AUCell, BaalChIP, bacon, bamsignals, basecallQC, BASiCS, BayesPeak, bayNorm, baySeq, beachmat, beadarray, BeadDataPackR, BEARscc, BgeeDB, bigmelon, bigmemoryExtras, bioassayR, bioCancer, BiocFileCache, BiocMetaWorkflow, BiocNeighbors, BiocOncoTK, BioCor, BiocParallel, BiocPkgTools, biomaRt, biomformat, biosigner, biotmle, BitSeq, blima, blimaTestingData, BloodCancerMultiOmics2017, bnbc, branchpointer, breakpointR, breakpointRdata, BridgeDbR, BrowserViz, bsseq, BUMHMM, BUScorrect, CAFE, CAGEfightR, CAGEr, CAMTHC, CancerInSilico, CAnD, Cardinal, CardinalWorkflows, CATALYST, cbaf, ccfindR, ccrepe, cellbaseR, cellity, CellMapper, CellMapperData, cellTree, CexoR, ChemmineDrugs, ChemmineOB, ChemmineR, Chicago, ChIPComp, chipenrich, chipenrich.data, ChIPexoQual, ChIPpeakAnno, ChIPQC, ChIPseeker, ChIPSeqSpike, chromstaR, chromswitch, ClassifyR, cleanUpdTSeq, cleaver, clipper, CLLmethylation, clusterExperiment, clusterSeq, ClusterSignificance, CNEr, CNPBayes, COCOA, CoGAPS, coMET, compcodeR, condcomp, CONFESS, consensusSeekeR, contiBAIT, conumee, CopyhelpeR, CopyNeutralIMA, CopywriteR, coRdon, CoRegNet, COSMIC.67, cosmiq, CountClust, covRNA, cpvSNP, CRISPRseek, CrispRVariants, CTDquerier, ctsGE, curatedBladderData, curatedCRCData, curatedMetagenomicData, curatedOvarianData, curatedTCGAData, CVE, cydar, dada2, dagLogo, DaMiRseq, DAPAR, DChIPRep, ddPCRclust, decontam, DEFormats, DEGreport, DelayedArray, DelayedMatrixStats, DEP, DEqMS, derfinder, derfinderHelper, derfinderPlot, DEScan2, DEXSeq, DiffBind, diffcyt, diffuStats, discordant, DmelSGI, dmrseq, DNABarcodes, doppelgangR, Doscheda, DOSE, drawProteins, DRIMSeq, DropletUtils, dSimer, DSS, DuoClustering2018, dupRadar, easyRNASeq, EBImage, EDASeq, EGSEA, EGSEA123, eiR, ELMER, ELMER.data, EmpiricalBrownsMethod, EnrichmentBrowser, ensembldb, EpiDISH, epivizr, epivizrChart, epivizrData, epivizrServer, epivizrStandalone, eQTL, erma, ERSSA, EuPathDB, EventPointer, ExperimentHub, ExperimentHubData, ExpressionNormalizationWorkflow, FamAgg, FastqCleaner, fCCAC, fCI, FELLA, FindMyFriends, flowcatchR, flowMap, FlowSOM, fmcsR, FourCSeq, furrowSeg, GA4GHclient, GA4GHshiny, GARS, gcapc, GDSArray, genbankr, GeneAccord, genefilter, GeneOverlap, geneplast, generegulation, GeneStructureTools, GenoGAM, GenomeInfoDb, GenomicAlignments, GenomicDataCommons, GenomicFeatures, GenomicFiles, GenomicInteractions, GenomicRanges, GenomicScores, GenomicTuples, genoset, GenVisR, GeuvadisTranscriptExpr, ggbio, Glimma, glmSparseNet, GMRP, GOexpress, GOfuncR, GoogleGenomics, GOpro, goSTAG, gpart, gQTLBase, gQTLstats, graphite, GreyListChIP, GRmetrics, groHMM, GSAR, GSE62944, GSEABase, GSEABenchmarkeR, GUIDEseq, Gviz, gwasurvivr, Harman, HarmanData, HD2013SGI, HDCytoData, HDF5Array, HelloRanges, HelloRangesData, highthroughputassays, Hiiragi2013, hipathia, HIREewas, HiTC, HMP16SData, HPAanalyze, hpAnnot, hpar, HTSFilter, HumanAffyData, ideal, iGC, igvR, IHW, IHWpaper, illuminaio, imageHTS, IMAS, Imetagene, immunoClust, InPAS, INSPEcT, InTAD, InteractionSet, InterMineR, IONiseR, IRanges, iSEE, isomiRs, IVAS, JctSeqData, JunctionSeq, karyoploteR, kissDE, liftOver, Linnorm, loci2path, Logolas, LOLA, LoomExperiment, LowMACA, lpsymphony, LRBaseDbi, M3D, MACPET, maEndToEnd, MAGeCKFlute, mAPKL, maser, MAST, MatrixRider, matter, MaxContrastProjection, MBASED, MBttest, MCbiclust, mCSEA, mCSEAdata, mdgsa, MEAL, MEDIPS, messina, MetaboSignal, metagene, metagenomeFeatures, metavizr, methimpute, methInheritSim, MethPed, MethylAid, MethylAidData, methylInheritance, MethylMix, methyvim, methyvimData, MetNet, mfa, microbiome, mimager, minfi, minionSummaryData, MIRA, miRcomp, miRmine, miRSM, miRsponge, missMethyl, missRows, mixOmics, mlm4omics, MLSeq, MMDiff2, MODA, mogsa, MoonlightR, motifbreakR, motifStack, mpra, mQTL.NMR, MSMB, MSnbase, MSnID, msPurity, msqc1, MSstats, MSstatsBioData, MSstatsTMT, MTseeker, MultiAssayExperiment, MultiDataSet, multiHiCcompare, multiMiR, MutationalPatterns, MWASTools, mygene, myvariant, mzR, NADfinder, NanoStringDiff, NanoStringQCPro, NarrowPeaks, ndexr, netbiov, nethet, netprioR, netReg, netSmooth, nondetects, normr, npGSEA, nucleoSim, nucleR, oligo, omicade4, omicRexposome, OmicsMarkeR, omicsPrint, Onassis, OnassisJavaLibs, OncoScore, OncoSimulR, ontoProc, OPWeight, ORFik, Organism.dplyr, Oscope, OUTRIDER, PAA, PANTHER.db, PanVizGenerator, parathyroidSE, pasilla, PasillaTranscriptExpr, Path2PPI, paxtoolsr, Pbase, pcaExplorer, PCAN, PCHiCdata, PepsNMR, PepsNMRData, perturbatr, PGA, PGPC, phantasus, phenopath, philr, phyloseq, Pi, Pigengene, plethy, plotGrouper, plyranges, Polyfit, powerTCR, pqsfinder, profileScoreDist, pRoloc, pRolocGUI, PROPER, Prostar, proteomics, ProteomicsAnnotationHubData, ProteoMM, proteoQC, PSEA, PureCN, PWMEnrich, qcmetrics, QDNAseq, qpgraph, qsea, QSutils, quantro, QuasR, R3CPET, RaggedExperiment, rain, ramwas, RandomWalkRestartMH, Rbowtie, Rcade, rcellminer, rcellminerData, rCGH, RcisTarget, RCy3, RCyjs, rDGIdb, ReactomePA, recount, recountWorkflow, recoup, RedeR, RefNet, regioneR, regsplice, ReQON, restfulSE, rexposome, RforProteomics, rfPred, RGMQL, RGMQLlib, RGraph2js, RGSEA, rhdf5, rhdf5client, Rhdf5lib, Rhtslib, RiboProfiling, riboSeqR, RIVER, RJMCMCNucleosomes, RNAprobR, RNAseq123, rnaseqcomp, RnaSeqSampleSize, RnaSeqSampleSizeData, Rnits, rols, ropls, rpx, rqt, Rsamtools, RTCGAToolbox, RTN, RTNduals, RTNsurvival, RUVcorr, RUVSeq, RVS, rWikiPathways, S4Vectors, samExploreR, sampleClassifier, sampleClassifierData, sangerseqR, sapFinder, scater, scDD, SCLCBam, SCnorm, scone, scoreInvHap, scran, scRNAseq, scruff, segmentSeq, seqCAT, seqPattern, seqplots, seqsetvis, SeqSQC, sequencing, SeqVarTools, sevenC, SGSeq, shinyMethyl, ShortRead, SIAMCAT, SigCheck, SigFuge, signet, SIMD, similaRpeak, SIMLR, simulatorZ, sincell, Single.mTEC.Transcriptomes, SingleCellExperiment, singleCellTK, slinky, SNPediaR, SNPhood, SNPhoodData, soGGi, sparseDOSSA, sparsenetgls, SparseSignatures, specL, SpidermiR, splatter, SPLINTER, SSPA, stageR, STAN, StarBioTrek, STATegRa, statTarget, strandCheckR, SummarizedBenchmark, SummarizedExperiment, sva, SVAPLSseq, swfdr, switchde, synapter, systemPipeR, systemPipeRdata, TabulaMurisData, TargetSearch, TCGAbiolinks, TCGAbiolinksGUI, TCGAbiolinksGUI.data, TCGAutils, TENxBrainData, TENxPBMCData, TFARM, TFBSTools, TFHAZ, TFutils, tigre, TimerQuant, tissueTreg, TMixClust, ToPASeq, topdownr, TPP, tracktables, trackViewer, transcriptogramer, transcriptR, traseR, Trendy, tRNA, tRNAdbImport, tRNAscanImport, TRONCO, TTMap, TurboNorm, TVTB, twoddpcr, universalmotif, variancePartition, VariantAnnotation, VariantFiltering, variants, VariantToolsData, vidger, vsn, wavClusteR, XBSeq, xcms, yamss, YAPSA, yriMulti, zebrafishRNASeq, zinbwave

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