Bioconductor 3.24 Packages
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All packages — 3873
| Package | Title |
|---|---|
| a4Software | Automated Affymetrix Array Analysis Umbrella Package |
| a4BaseSoftware | Automated Affymetrix Array Analysis Base Package |
| a4ClassifSoftware | Automated Affymetrix Array Analysis Classification Package |
| a4CoreSoftware | Automated Affymetrix Array Analysis Core Package |
| a4PreprocSoftware | Automated Affymetrix Array Analysis Preprocessing Package |
| a4ReportingSoftware | Automated Affymetrix Array Analysis Reporting Package |
| ABarraySoftware | Microarray QA and statistical data analysis for Applied Biosystems Genome Survey Microrarray (AB1700) gene expression data. |
| abseqRSoftware | Reporting and data analysis functionalities for Rep-Seq datasets of antibody libraries |
| ABSSeqSoftware | ABSSeq: a new RNA-Seq analysis method based on modelling absolute expression differences |
| acdeSoftware | Artificial Components Detection of Differentially Expressed Genes |
| ACESoftware | Absolute Copy Number Estimation from Low-coverage Whole Genome Sequencing |
| aCGHSoftware | Classes and functions for Array Comparative Genomic Hybridization data |
| ACMESoftware | Algorithms for Calculating Microarray Enrichment (ACME) |
| ADaCGH2Software | Analysis of Big Data from aCGH Experiments using Parallel Computing and ff Objects |
| ADAMSoftware | ADAM: Activity and Diversity Analysis Module |
| ADAMguiSoftware | Activity and Diversity Analysis Module Graphical User Interface |
| ADAPTSoftware | Analysis of Microbiome Differential Abundance by Pooling Tobit Models |
| adductDataExperiment | Data from untargeted MS of modifications to Cys34 of serum albumin |
| adductomicsRSoftware | |
| ADImputeSoftware | Adaptive Dropout Imputer (ADImpute) |
| adme16cod.dbAnnotation | Codelink ADME Rat 16-Assay Bioarray annotation data (chip adme16cod) |
| adSplitSoftware | Annotation-Driven Clustering |
| adverSCarialSoftware | adverSCarial, generate and analyze the vulnerability of scRNA-seq classifier to adversarial attacks |
| AerithSoftware | Visualization and Annotation of Isotopic Enrichment Patterns of Peptides and Metabolites with Stable Isotope Labeling from Proteomics and Metabolomics |
| AffiXcanSoftware | A Functional Approach To Impute Genetically Regulated Expression |
| affxparserSoftware | Affymetrix File Parsing SDK |
| affySoftware | Methods for Affymetrix Oligonucleotide Arrays |
| affycompSoftware | Graphics Toolbox for Assessment of Affymetrix Expression Measures |
| affycompDataExperiment | affycomp data |
| affyContamSoftware | structured corruption of affymetrix cel file data |
| affycoretoolsSoftware | Functions useful for those doing repetitive analyses with Affymetrix GeneChips |
| affydataExperiment | Affymetrix Data for Demonstration Purpose |
| Affyhgu133A2ExprExperiment | Affymetrix Human Genome U133A 2.0 Array (GPL571) Expression Data Package |
| Affyhgu133aExprExperiment | Affymetrix Human hgu133a Array (GPL96) Expression Data Package |
| Affyhgu133Plus2ExprExperiment | Affyhgu133Plus2Expr (GPL570) Expression Data Package |
| affyILMSoftware | Linear Model of background subtraction and the Langmuir isotherm |
| affyioSoftware | Tools for parsing Affymetrix data files |
| affylmGUISoftware | GUI for limma Package with Affymetrix Microarrays |
| AffymetrixDataTestFilesExperiment | Affymetrix Data Files (CEL, CDF, CHP, EXP, PGF, PSI) for Testing |
| Affymoe4302ExprExperiment | Affymetrix Mouse Genome 430 2.0 Array (GPL1261) Expression Data Package |
| affyPLMSoftware | Methods for fitting probe-level models |
| AffyRNADegradationSoftware | Analyze and correct probe positional bias in microarray data due to RNA degradation |
| ag.dbAnnotation | Affymetrix Affymetrix AG Array annotation data (chip ag) |
| agcdfAnnotation | agcdf |
| AGDEXSoftware | Agreement of Differential Expression Analysis |
| aggregateBioVarSoftware | Differential Gene Expression Analysis for Multi-subject scRNA-seq |
| agilpSoftware | Agilent expression array processing package |
| AgiMicroRnaSoftware | Processing and Differential Expression Analysis of Agilent microRNA chips |
| agprobeAnnotation | Probe sequence data for microarrays of type ag |
| AHCytoBandsAnnotation | CytoBands for AnnotationHub |
| AHEnsDbsAnnotation | EnsDbs for AnnotationHub |
| AHLRBaseDbsAnnotation | LRBaseDbs for AnnotationHub |
| AHMassBankSoftware | MassBank Annotation Resources for AnnotationHub |
| AHMeSHDbsAnnotation | MeSHDbs for AnnotationHub |
| AHPathbankDbsAnnotation | Metabolites and proteins linked to PathBank pathways (for AnnotationHub) |
| AHPubMedDbsAnnotation | SQLites, tibbles, and data.tables for AnnotationHub |
| AHWikipathwaysDbsAnnotation | Metabolites linked to WikiPathways pathways (for AnnotationHub) |
| AIMSSoftware | AIMS : Absolute Assignment of Breast Cancer Intrinsic Molecular Subtype |
| airpartSoftware | Differential cell-type-specific allelic imbalance |
| airwayExperiment | RangedSummarizedExperiment for RNA-Seq in airway smooth muscle cells, by Himes et al PLoS One 2014 |
| alabasterSoftware | Umbrella for the Alabaster Framework |
| alabaster.baseSoftware | Save Bioconductor Objects to File |
| alabaster.bumpySoftware | Save and Load BumpyMatrices to/from file |
| alabaster.filesSoftware | Wrappers to Save Common File Formats |
| alabaster.maeSoftware | Load and Save MultiAssayExperiments |
| alabaster.matrixSoftware | Load and Save Artifacts from File |
| alabaster.rangesSoftware | Load and Save Ranges-related Artifacts from File |
| alabaster.sceSoftware | Load and Save SingleCellExperiment from File |
| alabaster.schemasSoftware | Schemas for the Alabaster Framework |
| alabaster.seSoftware | Load and Save SummarizedExperiments from File |
| alabaster.sfeSoftware | Language agnostic on disk serialization of SpatialFeatureExperiment |
| alabaster.spatialSoftware | Save and Load Spatial 'Omics Data to/from File |
| alabaster.stringSoftware | Save and Load Biostrings to/from File |
| alabaster.vcfSoftware | Save and Load Variant Data to/from File |
| ALDEx2Software | Analysis Of Differential Abundance Taking Sample and Scale Variation Into Account |
| alevinQCSoftware | Generate QC Reports For Alevin Output |
| ALLExperiment | A data package |
| AllelicImbalanceSoftware | Investigates Allele Specific Expression |
| ALLMLLExperiment | A subset of arrays from a large acute lymphoblastic leukemia (ALL) study |
| AlphaBetaSoftware | Computational inference of epimutation rates and spectra from high-throughput DNA methylation data in plants |
| AlphaMissense.v2023.hg19Annotation | AlphaMissense v2023 Pathogenicity Scores AnnotationHub Resource Metadata for hg19 |
| AlphaMissense.v2023.hg38Annotation | AlphaMissense v2023 Pathogenicity Scores AnnotationHub Resource Metadata for hg38 |
| AlphaMissenseRSoftware | Accessing AlphaMissense Data Resources in R |
| AlpsNMRSoftware | Automated spectraL Processing System for NMR |
| altcdfenvsSoftware | alternative CDF environments (aka probeset mappings) |
| alternativeSplicingEvents.hg19Annotation | Alternative splicing event annotation for Human (hg19) |
| alternativeSplicingEvents.hg38Annotation | Alternative splicing event annotation for Human (hg38) |
| AMARETTOSoftware | Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis and Penalized Regression |
| AMOUNTAINSoftware | Active modules for multilayer weighted gene co-expression networks: a continuous optimization approach |
| AmpAffyExampleExperiment | Example of Amplified Data |
| amplicanSoftware | Automated analysis of CRISPR experiments |
| anansiSoftware | Annotation-Based Analysis of Specific Interactions |
| AnaquinSoftware | Statistical analysis of sequins |
| ANCOMBCSoftware | Microbiome differential abudance and correlation analyses with bias correction |
| ANFSoftware | Affinity Network Fusion for Complex Patient Clustering |
| anglemaniaSoftware | Feature Extraction for scRNA-seq Dataset Integration |
| animalculesSoftware | Interactive microbiome analysis toolkit |
| annaffySoftware | Annotation tools for Affymetrix biological metadata |
| anndataRSoftware | AnnData interoperability in R |
| annmapSoftware | Genome annotation and visualisation package pertaining to Affymetrix arrays and NGS analysis. |
Browse packages by biocViews term. Counts are cumulative over each subtree.
Software (2487)
a4a4Basea4Classifa4Corea4Preproca4ReportingABarrayabseqRABSSeqacdeACEaCGHACMEADaCGH2ADAMADAMguiADAPTadductomicsRADImputeadSplitadverSCarialAerithAffiXcanaffxparseraffyaffycompaffyContamaffycoretoolsaffyILMaffyioaffylmGUIaffyPLMAffyRNADegradationAGDEXaggregateBioVaragilpAgiMicroRnaAHMassBankAIMSairpartalabasteralabaster.basealabaster.bumpyalabaster.filesalabaster.maealabaster.matrixalabaster.rangesalabaster.scealabaster.schemasalabaster.sealabaster.sfealabaster.spatialalabaster.stringalabaster.vcfALDEx2alevinQCAllelicImbalanceAlphaBetaAlphaMissenseRAlpsNMRaltcdfenvsAMARETTOAMOUNTAINamplicananansiAnaquinANCOMBCANFanglemaniaanimalculesannaffyanndataRannmapannoLinkerannotateAnnotationDbiAnnotationFilterAnnotationForgeAnnotationHubAnnotationHubDataannotationToolsannotatranotaanota2seqantiProfilesAnVILAnVILAzAnVILBaseAnVILBillingAnVILGCPAnVILPublishAnVILVRSAnVILWorkflowapComplexapeglmAPLappreci8Raroma.lightArrayExpressarrayMvoutarrayQualityarrayQualityMetricsARRmNormalizationartMSASAFEASEBASGSCAASICSASpliAssessORFASSETASSIGNassortheadASURATasuriatacInferCnvATACseqQCATACseqTFEAatenaatSNPattractAUCellaugere.coreaugere.deaugere.gseaaugere.screenaugere.soloautonomicsAWAggregatorAWFisherawstBaalChIPbaconBADERBadRegionFinderBAGSbambuBamScalebamsignalsBANDITSbandleBanksybanoccbarbieQbarmixRBaseSpaceRBasic4CseqBASiCSBASiCStanBasicSTARRseqbasiliskbasilisk.utilsbatchCorrBatChefbatchelorBatchQCBatchSVGBatchVariaBattlefieldBayesKnockdownBayesSpacebayNormbaySeqBBCAnalyzerBCRANKbcSeqbeachmatbeachmat.hdf5beachmat.tiledbbeadarrayBeadDataPackRBEATBEclearbedbaserbeerbenchdamicBenchHubBERTbetaHMMbetterChromVARbettrBG2BgeeCallBgeeDBBicAREBiFETbigmelonBindingSiteFinderbioassayRBiobasebiobtreeRBioc.gffbioCancerBioCartaImageBiocAzulBiocBaseUtilsBiocBookBiocBookDemoBiocBuildReporterBiocCheckBiocDuckDBBiocFHIRBiocFileCacheBiocGenericsbiocGraphBiocHailBiocHubsShinyBiocIOBiocMaintainerAppbiocmakeBiocNeighborsBioCorBiocParallelBiocPkgDashBiocPkgToolsbiocroxytestBiocSetBiocSingularBiocSklearnBiocStylebiocthisBiocVersionbiocViewsBiocWorkflowToolsbiodbbioDistBioGAbiomaRtbiomformatBioMVCClassbiomvRCNSBioNARBioNEROBioNetBioQCbiosignerBiostringsBioTIPbiotmlebiovizBasebiscuiteerBiSeqblacksheeprblaseblimaBLMABloodGen3ModuleblusterbnbcbnemBOBaFITborealisBRAINbranchpointerbreakpointRBreastSubtypeRbrendaDbBREW3R.rBridgeDbRbroadSeqBrowserVizBSgenomeBSgenomeForgebsseqBufferedMatrixBufferedMatrixMethodsbugsigdbrBulkSignalRBUMHMMbumphunterBumpyMatrixBUSBUScorrectBUSpaRseBUSseqCaDrACAENCAFECAGEfightRcageminerCAGErCalibraCurvecalmCAMERACaMutQCcanceRcancerclasscardelinoCardinalCardinalIOCARDspacarnationCARNIVALcasperCATALYSTCategorycategoryCompareCatsCradleCausalRcbafcBioPortalDataCBN2PathCBNplotcbpManagerCCAFEccfindRccImputeCCPlotRCCPROMISECDIcelarefceldaCellBarcodecellbaseRCellBenchcellityCellMapperCellMentorcellmigcellmigRationCellMixScellNexusCellNOptRcellscapeCellTrailscellxgenedpCEMiToolcenscytCepoceRNAnetsimCeTFCexoRCFAssaycfdnakitcfDNAProcfToolsCGENCGHbaseCGHcallcghMCRCGHnormaliterCGHregionsCGRphylo2ChAMPChemmineOBChemmineRCHETAHchevreulPlotchevreulProcesschevreulShinyChicagochihayachimeravizChIPanalyserChIPCompchipenrichChIPexoQualChIPpeakAnnoChIPQCChIPseekerchipseqChIPseqRChIPsimChIPXpresschopsticksChromatogramschromDrawChromHeatMapchromPlotChromSCapechromVARCHRONOScicerocigarilloCIMICEcircRNAprofilerCircSeqAlignTkCiteFuseCLAMPClassifyRcleanUpdTSeqCleanUpRNAseqcleaverclevRvisclippdaclippercliProfilercliqueMSClomialClonalSimclstclstutilsCluMSIDClustAllclustCompclusterExperimentClusterFoldSimilarityClusterGVisClusterJudgeclusterProfilerclusterSeqClusterSignificanceclusterStabclustifyrClustIRRclustSIGNALCMAcmapRCMEntcn.farmscn.mopsCNAnormCNErCNORdtCNORfeederCNORfuzzyCNORodeCNToolsCNVfilteRcnvGSACNVizCNVMetricsCNVPanelizerCNVRangerCNVrd2CoCiteStatsCOCOAcodelinkCODEXCoGAPScogenacogeqcCogitocoGPScolacomaprcombicoMethDMRCOMPASScompcodeRCompensAIDcompEpiToolsComplexHeatmapCompoundDbComPrAncompSPOTCONCERTDRconcordexRcondimentsCONFESSconsensusConsensusClusterPlusconsensusDEconsensusOVconsensusSeekeRconsICACONSTANdconumeeconvertcopaCopyNumberPlotsCoralysiscoRdonCoreGxCormotifCorNettocorralcoseqCoSIAcosmiqcosmosRCOSNetCOTANcountsimQCcovEBCoverageViewcovRNACPSMcpvSNPcqnCrcBiomeScreenCRImageCRISPRballcrisprBasecrisprBowtiecrisprBwacrisprDesigncrisprScoreCRISPRseekcrisprShinyCrispRVariantscrisprVersecrisprVizcrlmmcrumblrcrupRCSARcsawcsawBookcsdRCSOACSSQctcCTdataCTDquerierctdRCTexploreRcTRAPctsGECTSVcustomCMPdbcustomProDBcyanoFiltercyclecydarCyFj11cypressCySACytoDxCyTOFpowercytofQCCytoGLMMcytoKernelcytolibcytomapperCytoMDScytoMEMCytoMLCytoPipelineCytoPipelineGUIcytoviewerdada2dagLogodaMADAMEfinderdamidBindDaMiRseqDamseldandelionRDAPARDaparToolsheddarDARTDAssembledaVisdbSequencedcanrDCATSdcGSAddCtddPCRclustdearseqdebrowserdecemedipDECIPHERdecompTumor2SigdecontamdecontXDeconvoBuddiesdeconvRdecoupleRDeeDeeExperimentDeepPINCSdeepSNVDeepTargetDEFormatsDegCreDegNormDEGraphDEGreportDEGseqDelayedArrayDelayedDataFrameDelayedMatrixStatsDelayedRandomArrayDelayedTensorDELocaldeltaCaptureCdeltaGsegDeMANDDeMixTdemuxmixdemuxSNPDenoISTdensvisDEPDepecheRDepInfeRDEqMSderfinderderfinderHelperderfinderPlotDEScan2DESeq2DEsingleDESpacedestinyDEsubsDEWSeqDExMADEXSeqDFPDFplyrDiffBinddiffcoexpdiffcytDifferentialRegulationdiffGeneAnalysisdiffHicDiffLogodiffuStatsdiffUTRdiggitDinodinoRDiPPERdir.expiryDirichletMultinomialdiscordantDiscoRhythmdistinctdittoSeqdivergencedksDMCFBDMCHMMdmGseaDMRcallerDMRcateDMRScandmrseqDNABarcodeCompatibilityDNABarcodesDNAcopyDNAcycP2dnaEPICODNAfusionDNAshapeRDNEAdominatRDominoEffectdominoSignaldoppelgangRDoschedaDOSEdoseRDOtoolsDOTSeqdoubletroubledrawProteinsdreamletDRIMSeqDriverNetDropletUtilsdrugfindRdrugTargetInteractionsDrugVsDiseaseDspikeInDSSdStructDTADuckDBArrayDuckDBDataFrameDuckDBGRangesDuckDBSpatialDuneDuplexDiscovereRdupRadardyebiasDynDoceasierEasyCellTypeeasylifteasyreportingeasyRNASeqEBarraysEBcoexpressEBImageEBSEAEBSeqecolitkEDASeqedgeedgeREDIRqueryedsEGADEGSEAeiReisaRELMERELViSEMDomicsEMMAEmpiricalBrownsMethodEMTscoreEnhancedVolcanoenhancerHomologSearchEnMCBENmixEnrichDOEnrichedHeatmapEnrichmentBrowserenrichplotenrichViewNetensembldbepialleleREpiCompareepidecodeREpiDISHepigenomixepigraHMMEpiMixepimutacionsepiNEMEpipwRepiregulonepiregulon.extraepiRomicsepiSeekerepistackepistasisGAEpiTxDbepivizrepivizrChartepivizrDataepivizrServerepivizrStandaloneerccdashboardERSSAesATACescapeescheResetViseudysbiomeevaluomeREventPointerEWCEExClusterExiMiRExperimentHubExperimentHubDataExperimentSubsetExploreModelMatrixexploreSEExpoRiskRExpressionAtlasextraChIPsfabiafactDesignfactRfaersFamAggfamatFancyfastLiquidAssociationFastqCleanerfastRangesfastreeRfastsegfCCACfCIfcScanfdrameFEASTFeatSeekRfedupFELLAfenrffpefggaFGNetfgseaFilterFFPEfindIPsFindIT2FinfoMDSFISHalyseRfishashfishpondFitHiCflagmeFLAMESflowAIflowBeadsflowBinflowcatchRflowCHICflowCleanflowClustflowCoreflowCutflowCyBarflowDensityflowFPflowGateflowGraphflowMatchflowMeansflowMergeflowPeaksflowPloidyflowPlotsFlowSOMflowSpecsflowStatsflowTimeflowTransflowVizflowVSflowWorkspacefmcsRfmrsfobitoolsfourSynergyfRagmentomicsfraqFRASERfrenchFISHFRGEpistasisfrmafrmaToolsfunOmicsfuntooNormFuseSOMG4SNVHunterGA4GHclientGA4GHshinygagagageGApredictiongarfieldGARSGateFindergatomGBScleanRgcapcgcatestGCPtoolsgCrisprToolsgcrmaGDCRNAToolsgDNAxgDRgDRcoregDRimportgDRstylegDRutilsGDSArraygdscloudgdsfmtGeDiGEMgeminigemma.RgenArisegeneAttributionGeneBreakgeneClassifiersgeneClusterPatternGeneExpressionSignaturegenefiltergenefuGeneGAGeneMetaGeneNetworkBuilderGeneOverlapgeneplastgeneplottergeneRecommenderGeneRegionScangeneRxClusterGeneSelectMMDGENESISGeneStructureToolsgeNetClassifierGeneticsPedGeneTonicGENIE3genomationGenomAutomorphismGenomeInfoDbgenomeIntervalsgenomesGenomicAlignmentsGenomicCoordinatesGenomicDataCommonsGenomicDistributionsGenomicFeaturesGenomicFilesgenomicInstabilityGenomicInteractionNodesGenomicInteractionsGenomicOZoneGenomicPlotGenomicRangesGenomicScoresGenomicSuperSignatureGenomicTuplesGenProSeqGenVisRGeoDiffGEOfastqGEOmetadbgeomeTriDGeomxToolsGEOqueryGEOsubmissionGeoTcgaDatagep2pepgeselgetDEE2gevaGEWISTGExPipegeysergg4wayggbioggcytoggkeggggmanhggmsaGGPAggscggseqalignggspavisggtreeggtreeDendroggtreeExtraggtreeSpaceGIGSEAginmappeRgINTomicsGLADGladiaTOXGlimmaglmGamPoiglmSparseNetGlobalAncovaglobalSeqglobaltestGloScopeglycoTraitRgmapRGmicRgmovizGMRPGNOSISGOaGOgoateaGOexpressGOfanGOfuncRGOprogoProfilesGOSemSimgoseqgoSorensengoSTAGGOstatsGOTHiCgoToolsGPAGPlinksRgplsGrafGenGRaNIEgrapergraphGraphAlignmentGraphATGraphExperimentgraphitegrayleafspotrGRENITSGreyListChIPGRmetricsgroHMMgrowkarGSABenchmarkGSALightningGSARGSCAgscreendGSEABaseGSEABenchmarkeRGSEAlensGSEAlmGSEAmininggseanGSgalgoRGSRegGSRIGSVAgtrellisGUIDEseqGuitargVennGvizGWAS.BAYESgwascatGWASToolsgwasurvivrGWENAgypsumh5mreadh5vchammershapFabiaHarmanHarmonizRHDF5ArrayHDTDhdxmsqcheatmapsHeatplusHelloRangesHELPHEMhermesHERONHerperHGCHIBAGHicAggRHiCaptuReHiCBricksHiCcompareHiCDCPlusHiCDOCHiCExperimentHiContactsHiCoolHiCParserHiCPottshicVennDiagramhierGWAShierinfHilbertCurveHilbertVisHilbertVisGUIHiLDAhipathiaHIPPOHIREewasHiSpaRHistoImagePlotHiTCHMMcopyHoloFoodRhoodscanRhopachHPAanalyzehparHPiPHTqPCRHTSFilterHuBMAPRHubPubhummingbirdHVPHybridExpressHybridMTesthypeRhyperdrawhypergraphiASeqiasvaiBBiGIbexibhiBMQiCAREIcensiceteaiCheckiChipiClusterPlusiCNViCOBRAidealIdeoVizidiogramidpridr2dIFAAigblastriGCIgGeneUsageigvRigvShinyIHWilluminaioILoRegImageArrayimageFeatureTCGAimageTCGAimageTCGAutilsimcRtoolsIMMANimmApeximmGLIPHimmLynximmReferentimmunoClustimmunogenViewerimmunotationiModMixIMPCdataimputeINDEEDiNETgrateinfercnvinfinityFlowInformeasureInPASINPowerINSPEcTINTACTInTADintansvinteracCircosInteractionSetInteractiveComplexHeatmapInterCellarIntEREstIntramiRExploreRIntrinsicScaniPathipdDbIPOIRangesISAnalyticsiscreamiSEEiSEEdeiSEEfieriSEEhexiSEEhubiSEEidiSEEindexiSEEpathwaysiSEEtreeiSEEuiSeqISLETislifyisobarIsoBayesIsoCorrectoRIsoCorrectoRGUIIsoformSwitchAnalyzeRISoLDEisomiRsITALICSiterativeBMAiterativeBMAsurvIVASivygapSEIWTomicsjazzPandajvecforkarioCaSkaryoploteRkatdetectrKBoostKC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AssayDomain (968)
BG2cbafcellNexusGWAS.BAYESiGCMetIDnondetectspgcaScreenRtidybulktidyomicstidySingleCellExperimenttidySummarizedExperiment
CellBasedAssays (72)
bioassayRblaseCDICellNOptRcenscytCFAssayChemmineOBChemmineRciceroCNORdtCNORfeederCNORodeCytoDxCytoGLMMDepecheRdestinydiffcytDinoeiRflowBeadsflowBinflowCHICflowCoreflowCutflowCyBarflowFPflowGraphflowPlotsFlowSOMflowSpecsflowStatsflowTimeflowVizflowVSfmcsRFuseSOMGeomxToolsggcytoGRmetricsimmunoClustinfinityFlowiSEEiSEEfieriSEEidiSEEuislifylisaClustMAPFXMetaCytoMICSQTLMPRAnalyzeNanoStringNCToolsPANRrcellminerRTCAscBatchQCscCompoundDEscECODAscFastDEscFeaturesscpscTypeEvalseahtruesightsspatialHeatmapSpatialOmicsOverlayspicyRSTRprofilerRsynlettreeclimbRUCellwSIR
ChIPchip (6)
CopyNumberVariation (64)
ACEaCGHADaCGH2AMARETTOatacInferCnvbiomvRCNSBOBaFITcfdnakitCGHbasecghMCRCGHregionscn.farmscn.mopsCNAnormCNToolsCNVfilteRCNVizCNVMetricsCNVPanelizerCNVRangerCNVrd2CODEXconumeeCopyNumberPlotscrlmmdmGseaDNAcopyELViSfastsegGeneBreakGenomicOZoneGeoTcgaDatagINTomicsGLADHMMcopyiCNViGCinfercnvITALICSkaryoploteRKCsmartMAGARMANORmBPCRMEDIPSMinimumDistanceoncoscanRpanelcn.mopspathwayPCApgxRpiPREDAPureCNQDNAseqqseaquantsmoothrcellminerrCGHregioneRregioneReloadedSCOPEsparsenetglsVanillaICEVegaMCwavFeatExt
DNAMethylation (113)
ARRmNormalizationBEATBEclearbetaHMMbigmelonbiscuiteerBiSeqborealisbsseqbumphuntercbafcfToolsChAMPCMEntCOCOAcoMethDMRconumeeCTexploreRDAMEfinderdecemedipdeconvRdmGseaDMRcallerDMRcatedmrseqDSSedgeRELMEREnMCBENmixepialleleREpiDISHEpiMixepimutacionsfuntooNormGApredictionGEMGeoTcgaDataHarmanHELPHIREewashummingbirdiCheckiNETgrateiscreamknowYourCGlesLheuristiclumiMAGARMassArrayMBAmethylmCSEAMEALMEATMEDIPSMEDMEmethimputemethInheritSimmethodicalMethPedmethrixMethylAidmethylCCmethylclockmethylGSAmethyLImp2methylInheritancemethylKitMethylMixmethylMnMmethylPipemethylscaperMethylSeekRmethylSigmethylumiminfiMIRAmissMethylmistmitchMoonlight2RMoonlightRMPFENanoMethViznormalize450KomicsPrintpathwayPCAplanetPoDCallqseaRAMENramrramwasRBedMethylrecountmethylationregionalpcsREMPRnBeadsscMETscmethsesameshinyepicoshinyMethylskewrSOMNiBUSspikyTCGAbiolinksTENETTOASTTurboNormvmrseqwateRmelon
GeneExpression (654)
a4ClassifacdeADAMADImputeAffiXcanaffycoretoolsaffylmGUIAffyRNADegradationAGDEXaggregateBioVarAIMSairpartALDEx2AMARETTOAMOUNTAINAnaquinanotaanota2seqantiProfilesapeglmAPLASpliASSIGNASURATasuriatenaattractAUCellautonomicsawstbambuBANDITSBanksyBASiCSBASiCStanbatchelorBatchQCBatchVariaBayesKnockdownBayesSpaceBgeeCallBgeeDBBindingSiteFinderbioCancerBioCorBiocSetBioNEROBioNetBioQCBioTIPbiotmleblacksheeprblaseblimaBloodGen3ModuleblusterbnemBreastSubtypeRbroadSeqBUMHMMBUScorrectBUSseqCaDrACAENCAFECAGEfightRcageminerCAGErcalmcanceRcardelinocarnationCARNIVALcaspercategoryCompareCatsCradlecbafCBNplotCCPROMISEceldacellityCellMapperCellMixScellNexusCellTrailsCEMiToolCepoCeTFCHETAHchevreulPlotchevreulProcesschevreulShinyCiteFuseCLAMPCleanUpRNAseqclustCompClusterGVisClusterJudgeclusterSeqclustifyrclustSIGNALcmapRCNVRangerCoGAPScogenacolacompEpiToolsCONCERTDRCONFESSconsensusconsensusOVCoralysiscoRdoncorralcoseqCoSIACOTANcovEBcovRNACPSMcrumblrcsdRCSOACTdatactdRCTexploreRcTRAPctsGECTSVcypresscytoKerneldamidBindDARTdcGSAddCtdearseqdebrowserdecontXDeconvoBuddiesdeconvRdecoupleRDeeDeeExperimentDeepTargetDEFormatsDegCreDegNormDEGreportDEGseqDELocalDeMANDDeMixTDenoISTDESeq2DEsingleDESpaceDEsubsDExMADEXSeqdiffcoexpDifferentialRegulationdiffuStatsdiffUTRdiggitDinodistinctdittoSeqdmGseaDMRcatedominatRdoppelgangRdoseRDOtoolsDOTSeqdreamletDRIMSeqDropletUtilsDrugVsDiseaseDSSDTADuneeasierEasyCellTypeeasyRNASeqEBSEAedgeedgeRedsEGSEAeisaRELMEREMDomicsEMMAEmpiricalBrownsMethodEMTscoreEnhancedVolcanoEnrichmentBrowserepidecodeRepigenomixEpiMixepiregulonepiregulon.extraepistackerccdashboardERSSAEWCEExiMiRexploreSEfastLiquidAssociationffpefgseafindIPsfishpondFLAMESgagegatomGDCRNAToolsgDNAxGEMgemma.RgeneClassifiersGeneExpressionSignaturegenefuGeneGAGeneMetaGeneTonicGENIE3genomicInstabilityGenomicOZoneGenomicPlotGeoDiffGeomxToolsGEOqueryGeoTcgaDatagep2pepgetDEE2gevaGExPipegeysergg4wayGGPAggscggspavisGIGSEAgINTomicsGlimmaglobalSeqGmicRGOexpressGOprogoProfilesgoseqgoSorensengoSTAGGOstatsGPAGPlinksRGRaNIEGraphExperimentGRENITSGSABenchmarkGSALightningGSCAGSEABaseGSEABenchmarkeRgseanGSgalgoRGSRegGWENAhammersHDTDhipathiaHIPPOHTqPCRHTSFilterhummingbirdHVPHybridExpressHybridMTestiBMQiceteaiCheckidealiGCILoRegiModMixiNETgrateInformeasureInTADIntramiRExploreRIntrinsicScaniPathiSEEiSEEfieriSEEidiSEEpathwaysiSEEuISLETIsoBayesIsoformSwitchAnalyzeRISoLDEIVASivygapSEjazzPandaKBoostKEGGlincskmcutKnowSeqleapRlevilimmalimmaGUIlimpalimpcaLimROTSLinnormlionessRLiquidAssociationlncRnaloci2pathlooking4clustersLRcellLRDEM3CM3Dropmade4markeRmassiRMASTmastRMBASEDmbkmeansMBttestMCbiclustMEBmessinaMetaPhORmetaseqR2MethylMixMGFMMGFRMICSQTLmiQCMiRaGEMIRitmiRLABmiRSMmiRspongeRmitchmitologyMLPmnemMODAmogsamonocleMoonlight2RMoonlightRmosdefMPRAnalyzeMulcomMultiBaCmultiClustMultiOmicsBridgeMultiRNAflowmultistateQTLmultiWGCNANanoStringNCToolsNanoTubeNBAMSeqNebulosanempiNetActivitynetresponseNetSAMnetSmoothnetZooRNewWavennSVGnondetectsNormqPCROAtoolsoctadoligoomadaomicplotRomicRexposomeomicsGMFoncomixoposSOMopparorthogeneorthosOscopeOSTAOSTA.dataOUTRIDEROutSpliceOVESEGPACEpadmapairedGSEApandaRPanomiRpath2pathpathviewpathwayPCAPCAtoolsPDATKPECApecophantasusphantasusLitePharmacoGxphenopathpianoPigengenepipeCompplaidplgempostNetppcseqprebsPREDAproActivprogenyPROMISEPROPSpsichomicspumaqpcrNormqpgraphQRscorequantiseqrQuaternaryProdQUBICR3CPETrandRotationRankMapRankProdRCASPARrcellminerReactomeGSAReadqPCRrecountrecount3recoupReducedExperimentRegEnrichreglScatterplotRregutoolsretrofitRFGeneRankRiboDiPARIVERRLassoCoxRmmquantRNAAgeCalcRNAdecayRNAsensernaSentryRNAseqCovarImputeRnaSeqSampleSizeRnitsroastgsaROSeqROTSRPArScudoRsubreadRTCGAToolboxRTNRTNdualsRUVcorrsampleClassifierSanityRsarkssaseRsatuRnSBGNviewscAnnotatRscaterscBatchQCscBFASCBNscCB2scCertifyscClassifyscCompoundDEscDatavizscDDboostscDesign3scDiagnosticsscDotPlotscdsscFastDEscFeatureFilterscHOTscLANEscLangscmapscMergescMETscMultiSimsconescpscPCAscPipescQTLtoolsscranscrapperScreenRscRNAseqAppscryscShapesscTensorscTGIFscTypeEvalscuttlesechmSeqGateSeqGSEASeqtometrySErasterSETASEtoolsshinyDSPSigChecksigFeaturesiggenessignatureSearchsignifinderSIMLRsincellSingleCellAlleleExperimentsingleCellTKSingleRsingscoreSite2TargetslalomslingshotsmartidSmartPhossmoothclustsnapcountsnmSpaceMarkersSpaceTrooperspacexrspammRSpanielSpaNormspARISpatialData.dataSpatialData.plotspatialdataRSpatialDeconSpatialExperimentSpatialExperimentIOspatialHeatmapSpatialOmicsOverlayspatialSimGPspeckleSPICEYsplatterSplicingGraphsSplineDVsplineTimeRSPLINTERSpNeighSPONGEspoonSpotCleanSpotSweeperSPsimSeqsRACIPEsrnadiffsscusSNAPPYssPATHSstandRStatescopeRstPipesubSeqSurfRsurvcompsurvtypeSVPSwarnSeqswitchdesystemPipeRTBSignatureProfilerTCGAbiolinksTDbasedUFETDbasedUFEadvTEKRABberTENETTFEA.ChIPthyroidBRSTiDEomicstidybulktidyexposomicstidyomicstidySingleCellExperimenttidySpatialExperimenttidySummarizedExperimenttigreTINTissueEnrichTMixClustTOASTtomodatomoseqrTOPtopconfectstopGOtoppgeneToxicoGxtpSVGtradeSeqTrajectoryGeometryTrajectoryUtilstranscriptogramertransitetRanslatomeTREGtriprTSCANTSENATTSSrttgseatximetatximportUCellunifiedWMWqPCRVAExprsvariancePartitionvelociraptorvelovizvidgervipervisiumStitchedvissEVISTAVoyagervulcanweitrixwiggleplotrwSIRxCell2xcoreXevayarnzenithzFPKMzinbwave
GeneticVariability (40)
appreci8RBBCAnalyzerBUMHMMchopsticksClomialCrispRVariantsdeepSNVepistasisGAFRGEpistasisGBScleanRGENESISgmovizGSRegGWASToolsgwasurvivrhapFabiaISoLDEMAGARmartinimetagenomeSeqmicrobiomeExplorermissMethylmutscanOMICsPCAomicsPrintphyloseqqpgraphQSutilsRAIDSRAMENRIVERRLMMRsubreadRTNscQTLtoolsSeqVarToolsSIAMCATsnpStatstrioTVTB
SNP (88)
AlphaMissenseRappreci8RASAFEASSETBBCAnalyzerBG2BSgenomecageminerCCAFECGENchopsticksCNVRangerCNVrd2crlmmcustomProDBdecompTumor2SigdeepSNVDRIMSeqepistasisGAG4SNVHunterGBScleanRgcatestGEMgeneAttributionGeneRegionScanGENESISGenomicAlignmentsGeoTcgaDataGGPAGIGSEAGMRPGPAGWAS.BAYESGWASToolsgwasurvivrhapFabiahierGWAShierinfiASeqiBMQiCNVINPowerISoLDEIVASkatdetectrlfalogicFSMAGARmartiniMassArraymBPCRmbQTLmetaCCAMinimumDistancemitoClone2MouseFMmultistateQTLMungeSumstatsoligoOPWeightparatipathwayPCAProteoDiscoqpgraphQTLExperimentQtlizerRAMENREBETRIVERRLMMRsubreadsangerseqRscoreInvHapscQTLtoolssemisupSEMPLRSeqVarToolsSICtoolssiggenesSigsPacksitePathSNPediaRsnpStatssystemPipeRtadartrioVariantAnnotationVariantFiltering
Transcription (183)
AffiXcanaffylmGUIaggregateBioVarairpartaltcdfenvsAMARETTOannmapASpliatenaAUCellaugere.deautonomicsbambuBANDITSBicAREBiFETBioTIPblacksheeprblaseBUMHMMCAGEfightRCAGErcarnationcaspercbafcellNexusCeTFchevreulPlotchevreulProcesschevreulShinyChIPanalyserChIPexoQualCoGAPSconsensusSeekeRcovRNACSARctsGEcustomProDBdamidBinddearseqdecoupleRDeeDeeExperimentDEFormatsDepecheRDESeq2diffcoexpDifferentialRegulationdinoRdistinctDTAeasieredgeReisaRELMEREnhancedVolcanoepidecodeRepiregulonepiregulon.extraepiRomicserccdashboardERSSAEventPointerEWCEExiMiRfCCACfishpondgDNAxGeDiGeneTonicGenomicOZoneGenomicPlotGeomxToolsgg4wayGOexpressgoseqGRaNIEGSALightningGSgalgoRGSRIGuitarHarmaniceteaILoRegInPASiSEEiSEEfieriSEEidiSEEuISLETIsoformSwitchAnalyzeRISoLDEIVASivygapSEKBoostknowYourCGleslimmaLinnormlncRnaM3CMBASEDMBttestmetaseqR2methodicalmosaicsmosdefmotifbreakRMultiBaCMultiRNAflowNanoStringNCToolsNetActivitynetresponsenetZooROMICsPCAomicsPrintpairedGSEApandaRpathwayPCAPCAtoolsPIPETSplanttfhunterppcseqprimirTSSproActivpsichomicsqpgraphquantiseqrQuaternaryProdRegEnrichregionReportregutoolsRIVERRmmquantRNAdecayroarroastgsaRRHORTNrTRMrTRMuiSC3scCompoundDEscDatavizscdescDotPlotscmapSELEXSEMPLRSGSeqsigFeatureSiPSiCsitadelasnmspammRSpatialOmicsOverlaySPICEYSplicingGraphsSPONGESTADyUMsubSeqSurfRSVPtargetTEKRABberTENETTFARMTFBSToolsTFEA.ChIPTFHAZtidybulktidyomicstidySummarizedExperimenttigretranscriptogramertranscriptRtransiteTREGtricycleTSSrtximetatximportvisiumStitchedwiggleplotr
Technology (1629)
ACMEamplicanBioGACIMICEcompSPOTconsICACoverageViewDMRScandupRadarHiCBricksIFAAiGCLymphoSeqMDTSmetaponeMetIDMPACnondetectsopenPrimeRoptimalFlowORFhunteRpramscruffseq.hotSPOTspkToolsTAPseqwavClusteR
Sequencing (934)
abseqRACEADAPTADImputeairpartALDEx2AllelicImbalanceAMARETTOANCOMBCAnnotationDbianotaanota2seqapeglmAPLappreci8RASpliASURATatacInferCnvATACseqQCATACseqTFEAatenaawstBaalChIPBADERBadRegionFinderbambuBamScalebamsignalsBANDITSbarbieQbarmixRBaseSpaceRBasic4CseqBASiCSBASiCStanBatChefbatchelorBatchQCBatchVariaBattlefieldbayNormbaySeqBBCAnalyzerbcSeqbeerbetaHMMbetterChromVARBgeeDBBindingSiteFinderBiocDuckDBbiomvRCNSBiostringsBioTIPbiotmleBiSeqblacksheeprblaseborealisbreakpointRbroadSeqBSgenomeForgeBUMHMMBUSseqCAENCAGEfightRCAGErcalmcardelinocasperccImputeCDIceldaCellBarcodecellitycellNexusCellTrailsCepoCeTFCexoRcfdnakitcfDNAProcfToolschevreulPlotchevreulProcesschevreulShinyChicagoChIPanalyserChIPexoQualChIPQCchipseqchromPlotchromVARcicerocigarilloCircSeqAlignTkcleanUpdTSeqCleanUpRNAseqcliProfilerClomialClonalSimclstutilsclusterExperimentclusterSeqclustifyrcn.mopsCNAnormCNVfilteRCNVizCNVPanelizerCNVrd2COCOAcogenaCogitocompEpiToolsComplexHeatmapcompSPOTcondimentsconsensusSeekeRconsICACopyNumberPlotscorralcoseqCoverageViewCrispRVariantscsawCSSQctsGEcustomProDBcypressdada2damidBindDaMiRseqdardbSequencedcGSAdearseqdebrowserdecemedipDECIPHERdecompTumor2SigdecontamdeepSNVDEFormatsDegNormDeMixTdemuxmixdensvisderfinderderfinderHelperderfinderPlotDEScan2DESeq2DEsingleDESpaceDEWSeqDEXSeqDiffBinddiffcoexpDifferentialRegulationdiffHicDinodinoRDiPPERDirichletMultinomialdistinctDMCFBDMCHMMdmGseaDMRcallerDMRcateDMRScandmrseqDNABarcodeCompatibilityDNABarcodesDNAfusiondominoSignaldoseRDOTSeqdreamletDRIMSeqDropletUtilsDspikeInDSSdStructDuckDBGRangesDuplexDiscovereRdupRadareasyliftEBSEAEBSeqEDASeqedgeRedsEGSEAELViSenhancerHomologSearchEnrichedHeatmapensembldbepiRomicsesATACescapeEventPointerextraChIPsFastqCleanerfastRangesfCCACFEASTFilterFFPEfishashfishpondfourSynergyfRagmentomicsfraqFRASERgageGBScleanRgcapcgDNAxGDSArrayGeneBreakGeneMetaGeneNetworkBuildergeneRxClustergenomationGenomicAlignmentsGenomicDataCommonsGenomicDistributionsGenomicFeaturesGenomicFilesGenomicInteractionNodesGenomicOZoneGenomicPlotGenomicRangesGenomicScoresGenomicSuperSignatureGenomicTuplesGeomxToolsGEOquerygetDEE2gg4wayGlimmaglobalSeqGloScopegmovizGMRPGOexpressgoseqGOTHiCGPlinksRGreyListChIPgroHMMgtrellisGUIDEseqGuitargVennGvizGWENAhapFabiaHDF5ArrayHDTDHelloRangesHiCaptuReHiCBricksHiCcompareHiCDOCHilbertCurveHiLDAHIPPOHMMcopyHTSFilterhummingbirdIbexiceteaidealIFAAiGCigvShinyimmApeximmGLIPHimmLynximmReferentINSPEcTInTADintansvInteractiveComplexHeatmapIntEREstISAnalyticsiscreamiSeqISLETIsoBayesISoLDEIVASivygapSEkaryoploteRkatdetectrKnowSeqknowYourCGLACHESISLedPredlefserlevilimmalineagespotLinnormloci2pathLOLALRcellLRDELymphoSeqM3CM3Dropm6AboostMacarronmade4maftoolsMAGARmagpieMBASEDmbkmeansMBttestMDTSMEBMEDIPSmetabinRMetaDICTmetagene2metagenomeSeqMetaPhORmetaSeqmetaseqR2methimputemethInheritSimmethrixMethTargetedNGSmethylCCmethylInheritancemethylKitmethylMnMmethylPipemethylscaperMethylSeekRmethylSigmiaSimmiaTimemicrobiomemicrobiomeExplorerMICSQTLmiQCMIRAMiRaGEmiRNAtapmirTarRnaSeqmixOmicsMLSeqMMDiff2mobileRNAModstringsmonoclemosaicsMotif2SitemotifStackMPACmpraMPRAnalyzemsaMSA2distmultiHiCcompareMultiOmicsBridgeMultiRNAflowmultistateQTLmultiWGCNAmuscatmuscleMutSeqRNADfinderNBAMSeqnetSmoothNewWaveNOISeqnucleoSimnucleROGREomicplotRomicsGMFompBAMoncomixORFhunteRORFikOscopeOTUbaseOUTRIDERpanelcn.mopsparatiPathoStatpathviewPCANpecoperiodicDNAphenomisphilrPhIPDataphyloseqPICBPIPETSplanttfhunterplasmutpodkatposDemuxpostNetppcseqpramprebspreciseTADprimirTSSprofileplyrPROPERProteoDiscopsichomicsPureCNpwalignQDNAseqqseaqsmoothQSutilsqsvaRQTLExperimentquantiseqrquantroQuasRqueeemsr3CseqR453Plus1ToolboxraerRAIDSramwasrandRotationRAREsimRareVariantVisRbecrBLASTRbowtieRbowtie2RBPSpecificityRbwaRCSLrecountrecount3recoupREDseqregionReportregspliceREMPRepVizRfastprGREATrhinotypeRRhisat2RhtslibRiboCryptRiboDiPAriboSeqRribosomeProfilingQCRJMCMCNucleosomesrmspcRNAmodRRNAmodR.AlkAnilineSeqRNAmodR.MLRNAmodR.RiboMethSeqRNAseqCovarImputeRnaSeqSampleSizeRNAshapeQCRnBeadsroarroastgsaRqcrqtRsamtoolsRsubreadRSVSimRTCGAToolboxsangeranalyseRsangerseqRsaseRsatuRnSBGNviewscafariScale4CscaterscBatchQCscCB2scCertifyscCompoundDEscDDboostscDesign3scDotPlotscdsscFastDEscGPSscGraphVerseschexscHiCcomparescHOTsciferscLANEscmapscMergescMETscMitoMutscMultiSimsconeSCOPEscoupscPCAscPipescranscRepertoirescruffscryscuttlesegmentSeqselectKSigsseq.hotSPOTSeqArrayseqCATSeqGateSeqGSEAseqsetvisSeqVarToolsShortReadSIAMCATSICtoolssignatureSearchSimFFPESIMLRsimPICsincellSiPSiCsitadelaslalomslingshotSMITEsnapcountsnifterSomaticSignaturesSOMNiBUSspammRSpanielspatialHeatmapSpectralTADspikysplatterSpliceWizSplicingGraphsSplineDVsplotsSpotCleanSPsimSeqSRAdbssvizSTADyUMstPipeStructstringsStructuralVariantAnnotationsubSeqSummarizedExperimentSurfRsurvtypesvasvaNUMTsvaRetrosystemPipeRsystemPipeShinysystemPipeToolstadarTADCompareTAPseqTaxSEATCCTCGAbiolinksTCseqTENETTEQCTFEA.ChIPthyroidBRStidybulktidyCoveragetidyomicstidySingleCellExperimenttidySpatialExperimenttidySummarizedExperimenttimeOmicsTissueEnrichtomodatomoseqrtopGOtracktablestradeSeqtranscriptRtransmogRtraseRTREGTrIdentTSSrTVTBtweeDEseqtxcutrtxdbmakerUlarcircUMI4CatsVariantAnnotationVariantExperimentVariantFilteringVCFArrayvelociraptorvelovizVERSOvmrseqVplotRwavClusteRwiggleplotrWrenchxcoreYAPSAyarnzinbwave
ATACSeq (38)
DNASeq (41)
ACEALDEx2ATACseqQCATACseqTFEAbreakpointRClomialCNAnormCNVfilteRCNVizcompSPOTCopyNumberPlotsdearseqdecompTumor2SigesATACfRagmentomicsfraqGeneBreakGenVisRHGCkaryoploteRmaftoolsmiaSimmnemNADfindernempiomicplotRQDNAseqQSutilsRcwlPipelinesregioneRregioneReloadedSCOPEsemisupseq.hotSPOTSigsPackspatialHeatmapSPsimSeqTVTBtweeDEsequSORTYAPSA
RNASeq (423)
aggregateBioVarAIMSairpartALDEx2AMARETTOAnaquinanota2seqapeglmAPLASpliatenaattractautonomicsawstbaconBADERbambuBANDITSBasic4CseqBASiCSBASiCStanbatchelorBatchQCBatchVariabayNormBgeeCallBiocDuckDBBioTIPbiotmleblacksheeprblaseBreastSubtypeRbroadSeqBulkSignalRBUMHMMBUSpaRseCaDrACAENcalmcardelinocasperCausalRccImputeCDIcellitycellNexusCEMiToolCeTFCHETAHchevreulPlotchevreulProcesschevreulShinyCLAMPclusterExperimentClusterFoldSimilarityClusterGVisCNVRangerCoGAPScompcodeRcondimentsCONFESSconsensusconsICACoralysiscoseqcountsimQCcovEBCoverageViewcqncrumblrcTRAPctsGEcustomProDBcypressDaMiRseqDAssembledaVisdcGSAdearseqdebrowserdecontXDeconvoBuddiesdeconvRDeepTargetDEFormatsDegCreDegNormDEGreportDEGseqDELocalDepecheRderfinderderfinderHelperderfinderPlotDESeq2DEsingleDESpaceDEsubsDEXSeqdiffcoexpDifferentialRegulationDinodiscordantdistinctdittoSeqdoppelgangRDOtoolsDOTSeqdreamletDRIMSeqDropletUtilsDSSDunedupRadareasyRNASeqEBSeqEDASeqedgeRedsEGSEAeisaREMTscoreEnhancedVolcanoEnrichmentBrowserepiRomicsepistackerccdashboardERSSAEventPointerEWCEExClusterexploreSEfCCACfishpondFLAMESFRASERgagegCrisprToolsGDCRNAToolsgDNAxGeDiGeneStructureToolsGenomicAlignmentsGenomicOZoneGenomicPlotGenomicSuperSignatureGEOfastqGeomxToolsGEOqueryGeoTcgaDatagevaGExPipegg4waygINTomicsGlimmaglmGamPoiglobalSeqGloScopeGOexpressgoseqgoSTAGGRaNIEGSEABenchmarkeRGSVAGuitarGWENAHDF5ArrayhermesHGCHicAggRHTSFilterHybridExpressiASeqiasvaiceteaidealIHWILoRegiNETgrateINSPEcTInTADIntEREstIntrinsicScanISLETIsoBayesIsoformSwitchAnalyzeRISoLDEisomiRsIVASkissDEKnowSeqlevilimmaLimROTSLinnormlncRnaLRDEM3CM3DropmagpiemarrMASTmbkmeansMCbiclustmegadepthMetaPhORmetaSeqmetaseqR2MGFRMICSQTLMiRaGEmiRspongeRmitologyMLSeqmnemmobileRNAmonocleMOSimMPACmultipletRMultiRNAflowmultiWGCNAmumosaNanoStringNCToolsNBAMSeqnempiNetActivitynetSmoothNOISeqnullrangesomadaomicplotRomicsGMFompBAMOPWeightORFhunteRORFikorthosOscopeOUTRIDEROutSplicepadmaPAIRADISEpairedGSEApathlinkRPathoStatpathviewpcaExplorerPCAtoolspecophantasusphantasusLitephenopathPigengenepoemPOMAposDemuxpostNetppcseqpramprebsprimirTSSproActivPROPERProteoDiscopsichomicsqsmoothQuasRqusageraerrandRotationRCSLRcwlPipelinesrecountrecount3recoupRegEnrichregionReportregspliceReportingToolsretrofitRFGeneRankrgsepdRiboCryptRiboDiPArifirifiComparativermspcRNAAgeCalcRNAdecayrnaEditrRNAsensernaSentryrnaseqcompRNAseqCovarImputeRNASeqPowerRnaSeqSampleSizeRNAshapeQCroastgsaROTSRsubreadRUVSeqRvisdiffsampleClassifiersarkssaseRsatuRnSBGNviewSC3SCAN.UPCSCArraySCArray.satscaterscBubbletreescCB2scCertifyscDatavizscDblFinderscDDscdescDiagnosticsscDotPlotscdsscFeatureFilterscGraphVersescHOTscLANEscmapscMergeSCnormsconescPCAscPipescranscrapperscRNAseqAppscruffscryscShapesscuttleSeqGateSeqGSEASETASGSeqsignifinderSimBusincellSingleCellSignalRSiPSiCsitadelaslalomslingshotSMITEsnapcountspacexrspammRSpanielSpatialCPieSpatialOmicsOverlayspecklesplattersplicelogicSpliceWizSplicingFactorySplicingGraphsSplineDVSPLINTERSpotCleanSPsimSeqsSeqssPATHSssvizStatescopeRstPipestrandCheckRsubSeqSurfRsvaSVMDOSwarnSeqswitchdesystemPipeRtadarTaxSEATCCTCseqTENETTFEA.ChIPthyroidBRStidybulktidyomicstidySingleCellExperimenttidySpatialExperimenttidySummarizedExperimenttomodatomoseqrtopconfectstradeSeqtranscriptogramertranscriptRTREGTrendyTRESStricycleTSENATtweeDEseqtxcutrtximetatximportuSORTvariancePartitionVDJdivevelovizvidgerVISTAwavClusteRweitrixwiggleplotrxCell2XINAzenithzFPKMzinbwave
ChIPSeq (88)
airpartALDEx2atSNPBaalChIPCeTFCexoRChIPanalyserchipenrichChIPexoQualChIPpeakAnnoChIPQCChIPseekerchipseqChIPseqRChIPsimChIPXpressChromSCapecliProfilerCOCOAconsensusSeekeRCoverageViewCSARcsawCSSQdebrowserDegCrederfinderDESeq2DiffBindedgeREpiCompareepigenomixepigraHMMepiRomicsepiSeekerepistackextraChIPsfCCACFindIT2gcapcGenomicPlotGRaNIEGreyListChIPgVennHicAggRiASeqInTADiSeqkaryoploteRLedPredLinnormLOLAMACSrmarrMEDIPSmetagene2metaseqR2MIRAMMDiff2Motif2SitemotifbreakRMotifPeekermotifStackmotifTestRnormrnucleRnullrangesprofileplyrqseaQuasRrecoupregioneRregioneReloadedRepVizRJMCMCNucleosomesrmspcRsubreadseqsetvissevenCsimilaRpeaksitadelaSite2TargetsystemPipeRTCseqTFEA.ChIPTFHAZvulcanwiggleplotr
RIPSeq (5)
MethylSeq (32)
miRNA (13)
SangerSeq (3)
SmallRNA (4)
Microbiome (63)
ADAPTALDEx2anansiANCOMBCanimalculesbenchdamicbiomformatbugsigdbrcombicountsimQCCrcBiomeScreendada2darDAssembleDECIPHERdecontamDiPPERDirichletMultinomialDspikeInExpoRiskRFancyFinfoMDSHoloFoodRIFAAiSEEtreekarioCaSlefserMaaslin2maaslin3MBECSmbQTLMeLSImetabinRMetaDICTmetagenomeSeqMetaPathNetMGnifyRmiamiaDashmiaSimmiaTimemiaVizmicrobiomemicrobiomeDASimmicrobiomeExplorerMicrobiomeProfilerMicrobiotaProcessMMUPHinMultiOmicsBridgeOMAomicplotRPathoStatphilrphylobarphyloseqPLSDAbatchRbecRCMreconsiSIAMCATSpiecEasiTaxSEAzitools
WholeGenome (40)
ACEBadRegionFinderCCAFEcfdnakitcfDNAProCNAnormcompSPOTdecemedipDECIPHERDMRcateDMRScandmrseqdoubletroubleGeneBreakGenomAutomorphismglobalSeqiCNVkatdetectrLACHESISmbQTLMEALmethInheritSimmethylCCmethylInheritanceMungeSumstatspath2pathpodkatRAIDSRareVariantVisrGREATRVSSCOPEseq.hotSPOTsigvarsscuSummixsyntenetTVTBUniquornvmrseq
DenovoGenome
DenovoTranscriptome
MicrobialStrain (1)
HiC (33)
bnbcChicagodiffHicextraChIPsGenomicInteractionNodesGenomicInteractionsGOTHiCHicAggRHiCaptuReHiCBricksHiCcompareHiCDCPlusHiCDOCHiCExperimentHiContactsHiCoolHiCParserhicVennDiagramHiSpaRidr2dInTADInteractionSetmarinermultiHiCcompareOHCAplotgardenerpreciseTADR3CPETrGenomeTracksscHiCcomparesevenCSpectralTADTADCompare
MNaseSeq (2)
Microarray (399)
a4a4Basea4Classifa4Corea4Preproca4ReportingABarrayacdeACMEADaCGH2ADAMadSplitaffxparseraffyaffycompaffycoretoolsaffyILMaffyioaffylmGUIaffyPLMAffyRNADegradationAGDEXAgiMicroRnaAIMSaltcdfenvsAMARETTOAMOUNTAINannaffyannmapAnnotationDbiannotationToolsanotaanota2seqaroma.lightArrayExpressarrayMvoutarrayQualityarrayQualityMetricsARRmNormalizationasuriattractautonomicsBatchQCbeadarrayBeadDataPackRbetaHMMBgeeDBBicAREbigmelonbiomvRCNSBioNetbiotmleblimaBLMACaDrACAFEcalmcancerclassCausalRcbafCCPROMISECellMapperCeTFCGHbaseCGHcallcghMCRCGHnormaliterCGHregionsChAMPchopsticksclustifyrcn.farmsCNToolsCNVRangercodelinkCoGAPScogenacoGPSconsensusconsensusOVconumeeconvertCormotifcovEBcrlmmctccycledaMAdaVisdcGSADECIPHERDEGraphDeMixTDFPdiffcoexpdiffGeneAnalysisdiscordantDMRcateDNAcopydnaEPICOdoppelgangRDrugVsDiseaseDTAdyebiasEGSEAEMDomicsENmixEnrichmentBrowsererccdashboardEWCEExiMiRfabiafactDesignfdrameffpeflowVSfrmafrmaToolsgagegcrmagemma.RgenArisegeneClassifiersgenefilterGeneMetaGeneNetworkBuildergeneRecommenderGeneRegionScangeNetClassifierGEOqueryGEOsubmissionGeoTcgaDatagevaGExPipegINTomicsGLADGlimmaGlobalAncovaglobaltestGOexpressgoProfilesgoSorensengoSTAGGOstatsgoToolsgplsGSEABenchmarkeRGSEAlmGSRIGSVAGvizGWASToolsGWENAHarmanHDTDHeatplusHELPHEMHERONHMMcopyHybridMTestiBMQiCheckiChipIdeoViziGCilluminaioimputeIntramiRExploreRIntrinsicScanITALICSiterativeBMAiterativeBMAsurvKCsmartKnowSeqleslevilimmalimmaGUILimROTSlmdmeLPElumimaCorrPlotmade4MAGARMANORmaPredictDSCmarraymaSigPromaskBADmassiRmatchBoxMBCBmBPCRMCbiclustmCSEAmdpmdqcMEALMEATMEDIPSMEDMEMetaPhORMethylAidmethylCCmethyLImp2MfuzzMGFMMiChipmimagerminetminfiMinimumDistanceMiPPMiRaGEmirIntegratormiRNAtapmiRSMmiRspongeRmixOmicsMODAmotifStackMulcommultiscanmulttestNetActivitynetresponsenetZooRnnNormnormalize450KnpGSEAnucleROCplusoligoOLINOLINguioncoscanROrderedListPAAPADOGpandaRPathoStatpathviewPECApepStatphantasusphenoTestpianopickgenePigengeneplanetplgemPLPEprebsPROMISEprotGearpumapvacpvcaPvizqcmetricsqpgraphqsmoothquantiseqrquantroQUBICqusagerainRAMENrandRotationRankProdRBMrbsurvRDRToolboxrecountmethylationregspliceREMPReportingToolsrifirifiComparativeRLMMRmagpieRnitsroastgsaROntoToolsROTSRPARRHORToppersampleClassifierSBGNviewSCAN.UPCscPCAsemisupshinyepicoshinyMethylsigFeaturesiggenessignifinderSIMsizepowerSNAGEEsnmsnpStatsspammRspatialHeatmapSpeCondSPIAspikeLIspkToolsssizestepNormsvaTEQCthyroidBRStigretilingArraytimecoursetimeOmicsTINTOASTtopGOtranscriptogramertransitetRanslatometrioTTMapTurboNormtwilightvariancePartitionvsnwateRmelonwebbiocxCell2XDEzenith
MultiChannel (7)
OneChannel (68)
ABarrayaffxparseraffyaffycompaffycoretoolsaffyILMaffylmGUIaffyPLMAffyRNADegradationAgiMicroRnaaltcdfenvsAMARETTOannaffyannmaparoma.lightArrayExpressarrayQualityMetricsbeadarrayCAFEclippdacodelinkcopaCopyNumberPlotscyanoFiltercytoKernelcytomappercytoviewerdiffcoexpDMRcateEGSEAENmixEWCEExiMiRgagagagegcrmaGeneRegionScanGEOqueryGlobalAncovaglobaltestiCheckiChipkaryoploteRlimmalmdmelumimakecdfenvMSstatsLiPMSstatsLOBDMSstatsPTMMSstatsShinyoligoPAAPADOGPROMISEprotGearpumapvacRLMMroastgsaSCAN.UPCSNAGEEsnmspammRtilingArrayTurboNormvsnwebbioc
TwoChannel (60)
AMARETTOaroma.lightArrayExpressarrayQualityarrayQualityMetricsARRmNormalizationbigmelonChAMPconvertcopacytomappercytoviewerdaMAdiffcoexpDMRcatedyebiasEGSEAENmixExiMiRgagegenAriseGEOqueryHELPiChecklimmalimmaGUIlmdmelumiMAGARMANORmarraymCSEAMethylAidmethylumiminfiMSstatsLiPMSstatsLOBDMSstatsPTMMSstatsShinynnNormnormalize450KoligoOLINOLINguiPADOGpumaRegEnrichREMPRnBeadsroastgsaSCAN.UPCshinyMethylskewrSNAGEEsnmspammRstepNormTurboNormvsnwateRmelon
MethylationArray (48)
AMARETTObaconbetaHMMbigmelonChAMPCMEntCOCOAcoMethDMRconumeeDMRcatednaEPICOEnMCBENmixEpiDISHGEMGeoTcgaDataknowYourCGLheuristicMAGARMBAmethylmCSEAMEATmethodicalMethylAidmethylCCmethyLImp2MethylMixminfimissMethylmitchMoonlight2RMoonlightRnormalize450KplanetRAMENramrrecountmethylationregionalpcsREMPRnBeadssesameshinyMethylTCGAbiolinksTDbasedUFETDbasedUFEadvTENETTOASTTurboNorm
GenotypingArray (2)
MicroRNAArray (5)
mRNAMicroarray (23)
ChipOnChip (12)
ReversePhaseProteinArray
TissueMicroarray (2)
FlowCytometry (73)
CATALYSTcenscytCompensAIDcyanoFiltercydarCyFj11CySACytoDxCyTOFpowerCytoGLMMcytoKernelcytolibCytoMDScytoMEMCytoMLCytoPipelineCytoPipelineGUIDepecheRdiffcytdistinctflowAIflowBeadsflowBinflowCHICflowCleanflowClustflowCoreflowCutflowCyBarflowDensityflowFPflowGateflowGraphflowMatchflowMeansflowMergeflowPeaksflowPloidyflowPlotsFlowSOMflowSpecsflowStatsflowTimeflowTransflowVizflowVSflowWorkspaceGateFinderggcytoimmunoClustinfinityFlowMACSQuantifyRMAPFXMDSvisMetaCytoncdfFlowopenCytooptimalFlowPeacoQCplotGrouperpolyICSFlowquantiseqrreconsisccompscDatavizsciferSconifyspillRstaRgateSuperCellCytotidyFlowCoretidytoftreekoR
MassSpectrometry (166)
AerithAHMassBankapComplexartMSautonomicsAWAggregatorbandlebatchCorrbiosignerBRAINCalibraCurveCAMERACardinalCardinalIOCATALYSTChromatogramscliqueMSCompoundDbComPrAnCONSTANdcosmiqcustomProDBDAPARDaparToolshedDEPDEqMSDoschedaFeatSeekRflagmefobitoolsgagaglycoTraitRhdxmsqcINDEEDIPOisobarIsoBayesIsoCorrectoRIsoCorrectoRGUIkoinarlcmsPlotlimpaLIPIDIFylipidrLOBSTAHSMAITmarrMassArrayMassSpecWaveletmetabCombinerMetaboAnnotationMetaboAnnotatoRMetaboCoreUtilsmetabomxtrmetaMSmetaponeMetCircMetNetMsBackendMassbankMsBackendMassIVEMsBackendMetaboLightsMsBackendMetabolomicsWorkbenchMsBackendMgfMsBackendMspMsBackendParquetMsBackendRawFileReaderMsBackendSqlMsCoreUtilsMsDataHubMsExperimentMsFeaturesmsImputemsmsEDAmsmsTestsMSnbaseMSnIDmspmsmsPuritymsqrob2MsQualityMsStashMSstatsMSstatsBigMSstatsBioNetMSstatsConvertMSstatsLiPMSstatsLOBDMSstatsPTMMSstatsQCMSstatsQCguiMSstatsResponseMSstatsShinyMSstatsTMTmzIDmzRncGTWnotamenotameStatsnotameVizomicsGMFomXplorepeakPantheRPepSetTestpepVetpepXMLTabpgcaphenomisPiratplgempmpPolySTestproBAMrproBatchPROcessproDAprolfquapRolocProstarProteinBatcherProteoMMProtGenericsPSMatchptairMSPTModsqcmetricsQFeaturesqmtoolsqPLEXanalyzerquantMSImageRrawDiagrawrrRdisoprgoslinRMassBankRmzTabMrolsroplsrpxscDatavizscpSDAMSsfiSIMATSMADSmartPhossparsenetglsspecLSpectraSpectraQLSpectraStashSpectriPyspillRsquallmsstatTargetSubCellBarCodeSWATH2statsTargetDecoyTargetSearchTiDEomicstopdownrTPPTraianProttreekoRwpmxcmsyamss
ImagingMassSpectrometry (3)
qPCR (13)
MicrotitrePlateAssay (14)
CRISPR (25)
SingleCell (369)
ADImputeadverSCarialaggregateBioVarairpartalevinQCanglemaniaanndataRAPLassortheadASURATatacInferCnvAUCellaugere.soloawstBanksyBASiCSBASiCStanBatChefbatchelorBayesSpacebayNormBiocDuckDBblaseblusterbreakpointRBUSpaRseBUSseqCAENcardelinoCARDspaCATALYSTCatsCradleccfindRccImputeCCPlotRCDIcelarefceldaCellBenchCellMentorcellmigCellMixScellNexusCellTrailscellxgenedpcenscytCepoCeTFCHETAHchevreulPlotchevreulProcesschevreulShinyChromSCapechromVARciceroCIMICECiteFuseclusterExperimentClusterFoldSimilarityClusterGVisclustifyrClustIRRclustSIGNALcomaprcompSPOTconcordexRcondimentsCoralysiscorralCOTANcountsimQCcrumblrCSOAcydarCySACyTOFpowercytofQCCytoGLMMcytoKernelcytomappercytoMEMcytoviewerdandelionRDAssembleDCATSdecontXDeconvoBuddiesdeconvRdemuxmixdemuxSNPDenoISTdensvisDepecheRDEsingleDESpacediffcytDifferentialRegulationDinodistinctdittoSeqdominoSignalDOtoolsDOTSeqdreamletDropletUtilsdrugfindRDuneEasyCellTypeedgeRedsEMMAEMTscoreepiregulonescapeescheREWCEFEASTfishashfishpondFLAMESflowSpecsFuseSOMgemma.RgenomicInstabilityGEOquerygg4wayggscggspavisglmGamPoiGloScopeGraphExperimentGSABenchmarkhammersHDF5ArrayHGCHIPPOhoodscanRHuBMAPRHVPIbexILoRegimcRtoolsimmApeximmGLIPHimmLynximmunoClustinfercnvinfinityFlowInterCellarISAnalyticsiscreamiSEEiSEEfieriSEEhubiSEEidiSEEujvecforknowYourCGLACElemurleviLinnormlisaClustLoomExperimentLRcellMAPFXMASTmbkmeansmethylscaperMICSQTLmiloRmiQCmiRspongeRmistmistyRmitchmitoClone2mitologymnemMultimodalExperimentmultipletRmultipointRmumosamuscatNebulosanempinetSmoothNewWavenipalsMCIAnnSVGomicsGMFOMICsPCAOmnipathRompBAMontoProc2OSTAOSTA.dataPACEpanoramicpath2pathPCAtoolspecophenopathpoempolyICSFlowPOWSCQFeaturesGUIraerRankMapRCSLreglScatterplotRretrofitROSeqRsubreadRUCovaSanityRsatuRnSC3scafariscAnnotatRSCArraySCArray.satscaterscatterHatchscBatchQCscBFAscBubbletreescCB2scCertifyscClassifysccompscCompoundDEscConformscDatavizscDblFinderscDDscDDboostscDesign3scDiagnosticsscDotPlotscdsscECODAscFastDEscFeatureFilterscFeaturesscGPSscGraphVerseschexscHiCcomparescHOTsciferscLANEscLangscmapscMergescMETscmethscMitoMutscMultiSimSCnormsconeSconifySCOPEscpscPassportscPipescQTLtoolsscranscrapperscReClassifyscRepertoirescRNAseqAppscruffscryscShapesscTensorscTGIFscTHIscToppRscTreeVizscTypeEvalscuttleSDAMSSeqtometrySErasterSETAsignifinderSimBuSIMDSimiCvizSIMLRsimPICsimpleSegsingISTSingleCellAlleleExperimentSingleCellExperimentSingleCellSignalRsingleCellTKSingleRSiPSiCsketchRslalomslingshotsmoothclustsmoppixsnifterSpaceMarkersSpaceTrooperspacexrspammRSpanielSpatialData.dataSpatialData.plotspatialdataRSpatialExperimentSpatialExperimentIOspatialHeatmapspeckleSPIATSPICEYspicyRspillRsplatterSplineDVSpNeighspoonSpotCleanSPOTlightSPsimSeqStabMapStatescopeRStatialstPipeSuperCellCytoSVPSwarnSeqswitchdesynapsisTAPseqTDbasedUFETDbasedUFEadvTENxIOtenXploretidyFlowCoretidySingleCellExperimenttidySpatialExperimenttidytoftradeSeqTrajectoryGeometryTrajectoryUtilstransformGamPoitreekoRTREGtricycleTRONCOtximetaUCellVAExprsVDJdivevelociraptorVisiumIOvmrseqwaddRweitrixwSIRxCell2XeniumIOzellkonverterzinbwave
Spatial (98)
alabaster.sfeBanksyBatchSVGBattlefieldbetaHMMBulkSignalRCARDspaCatsCradleclustSIGNALconcordexRCTSVcytoviewerDenoISTDESpaceescheRFuseSOMGeomxToolsggscggspavisHiCPottsHiSpaRHistoImagePlothoodscanRHuBMAPRimcRtoolsjazzPandaknowYourCGlisaClustmiRspongeRmistyRmitologyMoleculeExperimentMultiAssaySpatialExperimentmultipointRnnSVGOSTAOSTA.dataPACEpanoramicpenglspoemRankMapRegionalSTreglScatterplotRretrofitscatterHatchsccompscDesign3scFeaturessciderscRNAseqAppSErastershinyDSPsignifindersimpleSegsmoothclustsmoppixsostaSpaceMarkersSpaceTrooperspacexrspammRSpaNormspARIspaSimSpatialArtifactsSpatialData.dataSpatialData.plotspatialdataRSpatialDeconSpatialExperimentSpatialExperimentIOspatialFDASpatialFeatureExperimentspatialHeatmapSpatialOmicsOverlayspatialSimGPSPIATspicyRSpNeighspoonSpotCleanSPOTlightSpotSweeperstandRStatialstJoincountstPipeSVPtidySpatialExperimenttomodatomoseqrtpSVGVisiumIOvisiumStitchedVoyagerwSIRXeniumIO
AnnotationHubSoftware (4)
ExperimentHubSoftware (11)
ResearchField (1225)
CellBiology (68)
airpartBASiCSBASiCStanblaseCCPlotRcellmigcellmigRationCellNOptRcenscytCFAssaycn.mopsCNORdtCNORfeederCNORodeCONFESScosmosRCRImageCytoDxCyTOFpowerCytoGLMMcytoMEMdearseqdestinyDiffBinddiffcytedgeRfastLiquidAssociationFISHalyseRflowcatchRflowDensityflowMeansFlowSOMfrenchFISHGateFindergCrisprToolsGenomicOZoneGRmetricsHPAanalyzehparidprigblastrISAnalyticsKEGGlincslimmaLiquidAssociationMetaCytometaseqR2midasHLAmistyRMPRAnalyzenetresponseOVESEGpanelcn.mopspathwayPCAroastgsascatterHatchseahtruesincellSiPSiCspammRSpaNormspatialHeatmapSPIATSuperCellCytoTENETternarynettRanslatomeuSORT
Genetics (209)
aCGHAGDEXAllelicImbalanceAlphaBetaASAFEAssessORFBANDITSBaseSpaceRBEATBiFETbiomvRCNSBiostringsBiSeqBSgenomeBUMHMMcalmcbafCCAFECGRphylo2chromPlotcliProfilerClomialcn.mopscomaprconsensusSeekeRCONSTANdcpvSNPCSARcsawctsGECTSVdearseqDECIPHERdecompTumor2SigdeepSNVDifferentialRegulationdiffuStatsdiscordantdistinctDMRcateDNAfusionDOTSeqDRIMSeqeasyRNASeqedgeREDIRqueryEGSEAensembldbEpiCompareepistasisGAerccdashboardEWCEFamAggfastLiquidAssociationfRagmentomicsFRASERfrenchFISHFRGEpistasisgageGBScleanRgCrisprToolsGeneBreakgeneplastgeneRxClusterGENESISGeneticsPedGenomeInfoDbgenomeIntervalsgenomesGenomicAlignmentsGenomicFeaturesGenomicFilesGenomicOZoneGenomicRangesGenomicScoresGEWISTggmanhGGPAginmappeRgoateaGPAGrafGenGRaNIEgwascatgwasurvivrhapFabiaHDTDHIBAGHybridMTestiGCIgGeneUsageimmunotationinfercnvintansvIsoBayesISoLDEKnowSeqlimmaLinnormLiquidAssociationloci2pathlogicFSm6AboostmartiniMassArrayMatrixRidermCSEAMEDIPSmetaCCAmetagene2MethTargetedNGSMGFMMGFRMICSQTLmidasHLAmitoClone2MLPmosaicsMotifPeekerMouseFMMSA2distMultipleAlignmentMungeSumstatsmuscleMutationalPatternsnetresponsenormrnucleoSimnucleRnuCposNuPoPOmaDBomicsPrintorthogeneOUTRIDERpackFinderpanelcn.mopsparatipathviewpathwayPCAPCANPedixplorerpgen2gdsPICBPIPETSPlinkMatrixpodkatPREDAprimirTSSpwalignQDNAseqqpgraphQSutilsQtlizerQuasRqueeemsRAIDSrainrandRotationRAREsimrBLASTRCASPARregioneRregioneReloadedrhinotypeRriboSeqRRIVERRRHORsubreadRVSSAIGEgdssangeranalyseRSBGNviewscMETscoreInvHapscoupscQTLtoolssemisupSeqArraySeqVarToolsshiny.goslingsimilaRpeakSingleCellAlleleExperimentSNPRelateSplicingGraphssscussvizSTRprofilerRStructuralVariantAnnotationSUITORSummarizedExperimentSummixsvaNUMTsvaRetroSynExtendsystemPipeRTENETTEQCTINtoppgenetransitetraseRtrioTVTBtxdbmakerUlarcircUPDhmmVariantAnnotationVariantFiltering
Metabolomics (133)
AerithAlpsNMRanansiASICSautonomicsbatchCorrbioassayRbiosignerBridgeDbRCalibraCurvecalmCAMERAChemmineOBChemmineRChromatogramscliqueMSCluMSIDcombiCompoundDbCorNettocosmiqcosmosRdiffuStatsDNEAdrugTargetInteractionsEGSEAeiRExpoRiskRFELLAfmcsRfobitoolsfunOmicsgraphitehdxmsqciModMixINDEEDIPOIsoCorrectoRIsoCorrectoRGUIKEGGemUPlcmsPlotlimmalimpcaLimROTSLOBSTAHSMacarronMAIMAITmarrMatrixQCvismetabCombinerMetaboAnnotationMetaboAnnotatoRMetaboCoreUtilsMetaboDynamicsmetabolomicsWorkbenchRmetabom8metabomxtrmetaMSMetaPhORmetaponeMetaProVizMetCircMetMashRMetNetmixOmicsMsBackendMassbankMsBackendMassIVEMsBackendMetaboLightsMsBackendMetabolomicsWorkbenchMsBackendMgfMsBackendMspMsBackendParquetMsBackendRawFileReaderMsBackendSqlMsCoreUtilsMsDataHubMsExperimentMsFeaturesmsPuritymsqrob2MsQualityMsStashMWASToolsmzRncGTWnetboostNormalyzerDEnotamenotameStatsnotameVizpairkatpathviewpathwayPCApeakPantheRPepsNMRphenomisPinPathpmpprolfquaptairMSQFeaturesqmtoolsquantMSImageRRankProdrawDiagrawrrRdisopRFLOMICSrgoslinRMassBankRmzTabMroastgsaroplsrWikiPathwaysSBGNviewSDAMSseahtruesfiSIMATspammRsparsenetglsSpectraSpectraQLSpectraStashSpectriPysquallmsstatTargetstructToolboxtimeOmicsvsclustxcmsyamss
Metagenomics (40)
ADAPTALDEx2animalculesbanoccbenchdamicbiomformatbugsigdbrcombicoRdonCrcBiomeScreendada2dardecontamDirichletMultinomialFancyfastreeRkarioCaSMaaslin2maaslin3mbQTLmetagenomeSeqMGnifyRmicrobiomemicrobiomeExplorermixOmicsMMUPHinMultiOmicsBridgeOGREomicplotRPathoStatphilrphyloseqRCMreconsisccompSIAMCATSpiecEasiTaxSEAtimeOmicsTrIdent
Proteomics (213)
AerithartMSASEBAssessORFautonomicsAWAggregatorbandlebioassayRbiosignerBRAINBulkSignalRCalibraCurvecalmCardinalCausalRCellNOptRcenscytChemmineOBChemmineRChromatogramscleaverclippdaCNORdtCNORfeederCNORodeComPrAnCONSTANdCoralysisCorNettocosmosRcustomProDBcydarCytoGLMMcytoKernelcytoMEMDAPARDaparToolsheddecontXdeltaGsegDEPDEqMSdiffcytdiffuStatsdmGseaDNEADominoEffectDoschedadrawProteinsdrugTargetInteractionsedgeREGSEAeiREWCEfCIfenrfmcsRfunOmicsGenProSeqGeomxToolsglycoTraitRhdxmsqcHPAanalyzehparHPiPidprIMMANimmunogenVieweriModMixinfinityFlowisobarIsoBayesKEGGemUPKinSwingRkoinarleapRlevilimmalimpaLimROTSMAPFXMassSpecWaveletMatrixQCvisMBQNMICSQTLmitchmixOmicsMsBackendMassIVEMsBackendMetaboLightsMsBackendMetabolomicsWorkbenchMsBackendMgfMsBackendMspMsBackendParquetMsBackendRawFileReaderMsBackendSqlMsCoreUtilsMsDataHubMsExperimentmsImputemsmsEDAmsmsTestsMSnbaseMSnIDmspmsmsqrob2MsQualityMsStashMSstatsMSstatsBigMSstatsBioNetMSstatsConvertMSstatsLiPMSstatsLOBDMSstatsPTMMSstatsQCMSstatsQCguiMSstatsResponseMSstatsShinyMSstatsTMTmzIDmzRNanoStringNCToolsNormalyzerDEnormScoreNPARComicRexposomeomicsGMFPAAPath2PPIpathviewpathwayPCAPECAPepSetTestpepVetpepXMLTabpgcaphenomisphosphonormalizerPhosRPinPathPiratplaidplgemPLPEPolySTestPrInCEproBAMrproBatchPROcessprocoilproDAprolfquapRolocpRolocGUIPRONEProstarProteinBatcherProteoDiscoProteoMMprotGearProtGenericsPSMatchPTModsPvizqcmetricsQFeaturesQFeaturesGUIqPLEXanalyzerrainRankProdrawDiagrawrrRCASPARRcpiReactomeGSARFLOMICSRmzTabMroastgsaRolDEroplsROTSrpxrScudoRtpcaSBGNviewscpSDAMSSingleCellSignalRSMADSmartPhosspammRsparsenetglsSpatialOmicsOverlayspecLSpectraSpectraQLSpectraStashSpectriPysquallmsstatTargetSubCellBarCodeSWATH2statsTargetDecoyTiDEomicstidyexposomicstimeOmicstopdownrtoppgeneTPPTPP2DTraianProtvsclustwpmXINA
Lipidomics (16)
Epigenetics (107)
AlphaBetaatacInferCnvBEATbetterChromVARBiFETbumphuntercbafcfToolsChicagochipenrichChromSCapecicerocliProfilerCMEntCOCOAcoMethDMRcrumblrCTdataCTexploreRdamidBinddecemedipDEScan2DiffBinddinoRDMRcatedmrseqdnaEPICOdreamleteasieredgeRENmixepialleleREpiCompareepidecodeREpiDISHepigraHMMEpiMixEpipwRepiRomicsfCCACG4SNVHunterGApredictionGOTHiCgVennHiCaptuReHiSpaRidr2dInTADISoLDEknowYourCGlimmam6AboostMAGARmCSEAMEATmetaseqR2methimputemethInheritSimMethPedmethylInheritancemethylscapermethylSigminfiMIRAMIRitmistmitchmonaLisaMotif2SiteMotifPeekermsgbsRNanoMethViznetboostnuCposnullrangesomicRexposomeOMICsPCAomicsPrintpathwayPCAplanetPoDCallPostChicagoproActivRAMENramrRBedMethylrecountmethylationREMPrnaEditrRnBeadsroastgsascMETsevenCSite2TargetSOMNiBUSspammRSPICEYsrnadiffTCseqTENETtidyexposomicsTOASTTRESSvariancePartitionvmrseqxcorezenith
Phylogenetics (18)
Pharmacogenomics (20)
Pharmacogenetics (16)
Cheminformatics (20)
StructuralGenomics (1)
StructuralPrediction (11)
Biophysics
MathematicalBiology (11)
BiomedicalInformatics (88)
artMSASAFEbatchCorrbetaHMMcbafcfToolsChemmineOBChemmineRClustIRRcoRdonCTDquerierdearseqdecompTumor2SigDiffBinddrugTargetInteractionseasieredgeReiRELViSEWCEfaersflowAIfmcsRfobitoolsfrenchFISHGApredictiongCrisprToolsgeneClassifiersGenomicOZoneGRaNIEgwasurvivrhummingbirdIgGeneUsageimmunotationiNETgrateISAnalyticsislifyIsoformSwitchAnalyzeRLACElimmamdpMEATmessinametaseqR2miRSMmiRspongeRmistyRMOGAMUNMouseFMnetboostnotamenotameStatsnotameVizOMICsPCAOncoScoreOPWeightpfamAnalyzeRPhenoGeneRankerPigengenepowerTCRprotGearpsichomicsrandRotationRcpiRESOLVErexposomeRImmPortRIVERrmeltingroastgsarScudosignifinderSigsPacksimonasincellSiPSiCsitadelaspammRSparseSignaturesspaSimSPIATssPATHSTENETthyroidBRStimescapeTRONCOVERSOZygosityPredictor
ComparativeGenomics (14)
FunctionalGenomics (108)
airpartAlphaBetaAlphaMissenseRannotatratenaaugere.screenBasicSTARRseqBindingSiteFindercageminerCAGErCexoRchipenrichchromPlotCOCOAcogeqcCogitocrisprBasecrisprBowtiecrisprBwacrisprDesigncrisprScorecrisprShinycrisprVersecrisprVizcrumblrcustomProDBdecoupleRDepInfeRDEWSeqDiffBinddmrseqdoubletroubledreamletedgeREGADeisaREpiCompareepidecodeRepiRomicsEWCEfCCACFGNetgCrisprToolsgDNAxGenomAutomorphismGenomicDistributionsGenomicOZonegoateaGSVAheatmapsHiCPottshparHybridExpressidr2dISAnalyticsIsoformSwitchAnalyzeRlimmalncRnaloci2pathLOLAmaftoolsmarinermemesmetaseqR2miloRMIRAMIRitModConMOMAMotifPeekerMouseFMmpramultistateQTLncRNAtoolsNetActivitynormrnullrangesOHCAOmaDBOMICsPCAORFikpathwayPCApfamAnalyzeRplanttfhunterplotgardenerpreciseTADproActivQTLExperimentRBPEqBindrfaRmrigvfRITANRIVERroastgsascQTLtoolsscreenCountersevenCsincellsitadelaspammRsplicelogicSurfRsyntenetTENETtximetaVarConvariancePartitionzenith
SystemsBiology (105)
artMSBioCorBioNERObnemCausalRCCPlotRceRNAnetsimCHRONOSCOCOAcogenaCorNettoCOTANcytoMEMdearseqDeMANDDEsubsdiggitdominoSignaldoseReasieredgeREGADEGSEAepidecodeRepiNEMExpoRiskRgagegCrisprToolsgeneplastGENIE3genomicInstabilityGenomicOZoneGenomicSuperSignaturegevaGmicRgrowkarhparHPiPIMMANiNETgrateINSPEcTIsoformSwitchAnalyzeRKBoostKEGGemUPKnowSeqlimmaLOLAmagrenemdpMEIGORMetaPathNetMetaProVizmetaseqR2microbiomeMIRAMIRitmistyRmnemMOGAMUNMOMAMouseFMMWASToolsnempiNetSAMOmnipathRopparPath2PPIpathviewpathwayPCApfamAnalyzeRPhenoGeneRankerPigengenepmmPrInCEprogenyprotGearrainRankProdRBPEqBindrcellminerRcpiReactomeGSARedeRregutoolsRIVERroastgsarScudorsemmedSBGNviewscQTLtoolsSETAsincellsitadelaSMITEspammRSPONGEsRACIPEsyntenettopGOtranscriptogramerTreeAndLeafvipervulcanwppiXINA
ComputationalChemistry
Agroinformatics
Transcriptomics (322)
ADImputeadverSCarialaggregateBioVarALDEx2AlphaMissenseRatenaAUCellautonomicsawstbaconbambuBASiCSBASiCStanbatchelorBatchSVGBatchVariaBattlefieldBayesSpacebiosignerblacksheeprblaseblusterbroadSeqBulkSignalRBUMHMMCAGEfightRcalmcardelinoCARDspacarnationCARNIVALCatsCradleCausalRcbafccfindRccImputecellityCellMentorCellMixScellNexusCEMiToolceRNAnetsimchevreulPlotchevreulProcesschevreulShinyCLAMPClusterGVisclustSIGNALCONCERTDRconcordexRcondimentsconsensusOVconsICACONSTANdCoralysisCorNettocosmosRCOTANcrumblrCTdataCTexploreRcTRAPdearseqDeconvoBuddiesdeconvRDeeDeeExperimentDELocalDenoISTDepecheRDEsingleDESpacediffuStatsDinodittoSeqdominoSignaldreamletDropletUtilsDuneDuplexDiscovereRedgeReisaREMMAEMTscoreepidecodeRescheRFLAMESfunOmicsgDNAxGeneStructureToolsGeneTonicGenomicOZoneGenomicSuperSignatureGeomxToolsGEOquerygetDEE2gevaggscggspavisglobalSeqgoateaGPlinksRGRaNIEGraphExperimentGWENAhoodscanRHVPHybridExpressiceteaILoRegiModMixiNETgrateinfercnvInterCellariSEEiSEEfieriSEEidiSEEuISLETIsoformSwitchAnalyzeRjazzPandaKBoostKEGGemUPkissDEKnowSeqleapRlemurlimmaM3Dropmade4markeRmaserMASTmastRMatrixQCvismbkmeansmdpmegadepthmetaseqR2mitchMOGAMUNMoleculeExperimentMOMAmosdefMultiOmicsBridgemultipletRmultipointRNanoStringNCToolsnetboostnetSmoothNewWavennSVGomicplotRomicRexposomeomicsGMFomicsPrintOmnipathRompBAMorthogeneOSTAOSTA.dataOUTRIDERPACEpath2pathpathMEDpathwayPCApecopenglsphantasusphantasusLitephenomisPICBPigengenePinPathpipeCompPIPETSplyxppostNetppcseqpramproActivpsichomicsquantiseqrRankMapRBPEqBindRCASReactomeGSARegEnrichRegionalSTreglScatterplotRretrofitRFGeneRankRFLOMICSrifirifiComparativeRIVERRNAdecayRNAshapeQCroastgsaroplsrScudosarkssatuRnSC3scAnnotatRSCANVISscaterscBatchQCscBFAscBubbletreescCB2scCompoundDEscDiagnosticsscdsscECODAscFastDEscFeaturesscHOTsciderscLANEscmapscMergescMultiSimsconescranscrapperscReClassifyscryscTypeEvalscuttleSeqGateSErasterSETAshinyDSPsingISTSingleCellAlleleExperimentSingleCellSignalRSingleRSiPSiCsitadelaslalomslingshotsmartidsmoothclustsmoppixsostaSpaceMarkersSpaceTrooperspacexrspammRSpanielSpaNormspARISpatialArtifactsSpatialCPieSpatialData.dataSpatialData.plotspatialdataRspatialDESpatialDeconSpatialExperimentSpatialExperimentIOspatialFDASpatialFeatureExperimentSpatialOmicsOverlayspatialSimGPSPICEYsplattersplicelogicSpliceWizSplicingFactorySplineDVSpNeighSPONGEspoonSpotCleanSpotSweeperssPATHSSTADyUMstandRStatescopeRstJoincountstPipeSVMDOSVPswitchdeTENETtenXploreterapadogTFEA.ChIPTFutilsthyroidBRSTiDEomicstidybulktidyexposomicstidyomicstidySpatialExperimenttidySummarizedExperimenttomodatomoseqrtopconfectstopGOtpSVGtradeSeqTREGtricycleTSENATTSSrtxcutrtximetatximportUCellvariancePartitionvelovizvisiumStitchedVISTAVoyagerweitrixwppiwSIRxCell2zenithzinbwave
Epitranscriptomics (4)
Immunology (421)
Immunogenetics (1)
ImmunoOncology (420)
AIMSALDEx2AlphaMissenseRamplicanAnaquinanota2seqapComplexapeglmartMSASpliatacInferCnvATACseqQCattractbaconBADERbambubandlebanoccBasic4CseqBASiCSBASiCStanBatchQCBayesSpacebayNormbcSeqBEATbetaHMMBiFETbioassayRbiomformatbiotmleblusterBRAINBUMHMMbumphuntercalmCAMERACardinalcasperCATALYSTCausalRcbpManagerccfindRceldacellityCellNOptRCellTrailsCEMiToolcenscytCeTFCFAssayCHETAHchipenrichchromVARciceroClomialClustIRRCNORdtCNORodeCOCOACODEXCoGAPScompcodeRCONFESScoRdoncoseqcosmiqcountsimQCcovEBCoverageViewcqnCRISPRseekCrispRVariantscTRAPctsGEcustomProDBcydarCytoDxCytoGLMMcytoKernelcytolibcytomapperCytoMLCytoPipelineCytoPipelineGUIcytoviewerdada2DaMiRseqdandelionRdcGSAdearseqdebrowserdecemedipDECIPHERdecontamDeepTargetDEFormatsDegNormDEGreportDEGseqDEPDepecheRDEqMSderfinderderfinderHelperderfinderPlotDEScan2DESeq2DEsingleDEsubsDEXSeqdiffcoexpdiffcytDirichletMultinomialdiscordantdmrseqdoppelgangRdreamletDRIMSeqDropletUtilsdupRadareasiereasyRNASeqEBSeqEDASeqedgeREGSEAEMMAEnhancedVolcanoENmixEnrichmentBrowserEpiDISHerccdashboardERSSAesATACEventPointerExClusterflowAIflowBeadsflowBinflowCHICflowCleanflowClustflowCoreflowCyBarflowGateflowGraphflowMatchflowMeansflowMergeflowPeaksflowPlotsflowSpecsflowStatsflowTimeflowTransflowVizflowVSflowWorkspacegagaGApredictionGateFindergCrisprToolsGDCRNAToolsGeneStructureToolsGenomicAlignmentsggcytoGmicRGOexpressgoseqgoSTAGGOTHiCGRmetricsGSEABenchmarkeRGUIDEseqHDF5ArrayHTSFilteriASeqiasvaIbexiceteaiCNVidealigblastrIgGeneUsageIHWimcRtoolsimmApeximmGLIPHimmLynximmunoClustimmunotationINDEEDInTADIntEREstIPOiSEEiSEEfieriSEEidiSEEuisobarIsoCorrectoRIsoCorrectoRGUIIsoformSwitchAnalyzeRISoLDEisomiRsIVASKnowSeqlimmaLimROTSLinnormLOBSTAHSLoomExperimentM3CMACSrMAGARMAITMassArrayMassSpecWaveletMCbiclustmCSEAmetabomxtrMetaCytometagenomeSeqmetaMSmetaSeqmetaseqR2methimputemethInheritSimMethPedmethylInheritanceMetNetMGFRmicrobiomeExplorerminfiMIRAMiRaGEmixOmicsMLSeqmonocleMPACMPRAnalyzemsgbsRmsmsEDAmsmsTestsMSnbaseMSnIDmsqrob2MSstatsMSstatsBioNetMSstatsLiPMSstatsLOBDMSstatsPTMMSstatsShinyMSstatsTMTmumosamuscatmzIDmzRncdfFlowNOISeqomicplotRomicRexposomeOMICsPCAomicsPrintopenCytoOPWeightORFikOscopeOSTA.dataOUTRIDERPAIRADISEpairedGSEAPANRPathoStatpcaExplorerpepXMLTabpgcaphantasusphenopathphilrphyloseqPigengeneplgemplotGrouperpogosPOWSCprebsprimirTSSproBAMrPROcesspRolocPROPERProteoMMprotGearpsichomicsPureCNqcmetricsqPLEXanalyzerquantiseqrQuasRqusageRcwlRcwlPipelinesRdisoprecountrecoupregionReportregspliceReportingToolsReUseDatargsepdRiboDiPARMassBankRNAdecayRNASeqPowerRnaSeqSampleSizeRnBeadsroastgsarolsroplsROTSrpxRsubreadRTCARUVSeqRVSsampleClassifierSC3SCAN.UPCscaterscDatavizscDDscdescFeatureFilterschexscmapscMETscmethSCnormsconeSconifyscPipescranscRepertoirescruffscuttleSDAMSSeqGSEASGSeqSIAMCATsightssignifinderSIMATSIMDSIMLRsimPICsincellSingleCellAlleleExperimentSingleCellExperimentsingleCellTKSiPSiCslalomSMITESpaceTrooperspammRsparsenetglsSpatialData.dataSpatialData.plotspatialdataRSpatialDeconSpatialExperimentSPIATspillRsplatterSplicingGraphsSPLINTERsrnadiffsSeqssvizstaRgatestatTargetstPipestrandCheckRsubSeqsvaSWATH2statsswitchdesynletsystemPipeRTargetSearchTCCtenXploreTFEA.ChIPtimeOmicstopdownrTPPtranscriptogramertranscriptRtreekoRTrendytricycletriprTRONCOtweeDEseqtximetatximportUniquornuSORTvariancePartitionVDJdivevidgervmrseqwavClusteRwiggleplotrxCell2xcmszenithzFPKMzinbwave
ImmunoPrevention
BiologicalQuestion (1036)
AnVILVRSCatsCradleChIPanalyserCIMICECNVMetricsconsensusSeekeRCoSIAdecompTumor2SigdeltaCaptureCdiscordantenrichViewNetepimutacionsGSALightningINDEEDlimpamethInheritSimmethylclockmethylInheritanceMetIDmusicatkNoRCEOGREOMICsPCAOncoSimulRpramprojectRqsvaRrexposomeRJMCMCNucleosomessimilaRpeakTFARMTFHAZTrajectoryGeometrytricycleVplotRYAPSA
AlternativeSplicing (50)
AMARETTOASpliBANDITScustomProDBDEXSeqDRIMSeqedgeRerccdashboardEventPointerfactRfishpondFLAMESFRASERGeneStructureToolsGenomicPlotGSRegIntEREstIsoBayesIsoformSwitchAnalyzeRIVASkissDElimmamaserMBttestmetaseqR2ModConOutSplicePAIRADISEpairedGSEApfamAnalyzeRproActivpsichomicspumaregspliceroastgsasaseRSGSeqsitadelaspammRSpliceImpactRsplicelogicSpliceWizSplicingFactorySplicingGraphsSPLINTERTINTSENATUlarcircVarConwiggleplotr
Coverage (159)
ACEanimalculesASpliATACseqQCatenaBadRegionFinderbambuBamScalebamsignalsBasic4CseqBasicSTARRseqbaySeqBBCAnalyzerbeerbetaHMMBindingSiteFinderborealisbreakpointRbroadSeqBUMHMMCAGEfightRCeTFCexoRchevreulPlotchevreulProcesschevreulShinyChIPanalyserChIPexoQualchipseqClonalSimCNAnormCNVPanelizerCNVrd2compEpiToolsconsensusSeekeRCopyNumberPlotscsawDAMEfinderdbSequenceDegNormDeMixTderfinderDEScan2diffcoexpdiffHicdinoRDMCFBDMCHMMdmGseaDMRcallerDMRcateDropletUtilseasyliftedgeRELViSEnrichedHeatmapensembldbepiSeekerepistackesATACextraChIPsfCCACFRASERgDNAxGenomicAlignmentsGenomicDistributionsGenomicFilesGenomicOZoneGenomicPlotGenomicRangesGenomicScoresgmovizGreyListChIPHDF5ArrayHelloRangesHilbertCurveigvShinyIntEREstkaryoploteRloci2pathMacarronMBttestMDTSMEDIPSmegadepthmetagene2methimputemethrixmethylPipemethylSigmiaSimMICSQTLMIRANBAMSeqNewWavenucleRopenPrimeRORFikperiodicDNAphenomisPhIPDataPICBPIPETSplyrangesprofileplyrPureCNqsvaRQuasRraerramwasRBPSpecificityRCASrecountrecount3recoupregionReportRepVizrGREATRiboDiPAribosomeProfilingQCRJMCMCNucleosomesRNAshapeQCrprimerRsamtoolsScale4CscaterscGPSscMETsconeSCOPEseqCATsevenCSICtoolssignatureSearchSMITEsnapcountspammRSpanielSpliceWizsrnadiffstrandCheckRSummarizedExperimentsurvtypesvaRetrosystemPipeRTFHAZtidyCoveragetopdownrtranscriptRtraseRTrIdentTSSrTVTBUlarcircUMI4CatsuncoverappLibvelociraptorVplotRwiggleplotr
DemethylateRegionDetection
DenovoAssembler
DifferentialDNA3DStructure
DifferentialExpression (409)
ABSSeqacdeADAPTaffylmGUIaggregateBioVarAgiMicroRnaairpartALDEx2AMARETTOAMOUNTAINAnaquinANCOMBCanotaanota2seqapeglmartMSASpliassortheadasuriatenaaugere.deautonomicsBADERbambuBANDITSBASiCSBASiCStanBatchQCbaySeqbenchdamicBioNetbiotmleblacksheeprblimaBLMAbroadSeqCAENcalmcarnationcasperCATALYSTCausalRcellNexusCellTrailsCepoCeTFcircRNAprofilerclippdaclusterSeqCNVRangerCoGAPScoGPScompcodeRconsensusOVCONSTANdcopaCoralysisCormotifCOTANcqncrumblrcsdRCTexploreRcTRAPctsGEcytoKerneldaMAdamidBindDARTDAssembledaVisdcanrddCtdearseqdebrowserdecoupleRDeeDeeExperimentDeepTargetDEFormatsDegNormDEGraphDEGreportDEGseqDELocalDEPDepecheRDEqMSderfinderderfinderHelperderfinderPlotDESeq2DEsingleDESpaceDEsubsDEWSeqDExMADEXSeqDFPdiffcoexpDifferentialRegulationdiffGeneAnalysisDiPPERdistinctDMRcateDNEAdoseRDOTSeqdreamletDRIMSeqdrugfindRDspikeInDSSDTAEBarraysEBSEAEBSeqEDASeqedgeedgeREGSEAEMDomicsEMMAEnhancedVolcanoEnrichmentBrowserepidecodeRepigenomixepiregulon.extraerccdashboardERSSAEWCEExploreModelMatrixfabiafactDesignfdramefenrfgseafindIPsfishpondflagmegagagagegatomgCrisprToolsGDCRNAToolsgDNAxgemma.RgenefuGeneSelectMMDgeNetClassifierGeneTonicGenomicOZoneGeoDiffGeoTcgaDatagep2pepgevaGExPipegg4wayGGPAGIGSEAGlimmaGlobalAncovaglobalSeqglobaltestgoateaGOexpressgoseqgoSTAGGPAGSALightningGSARGSEABenchmarkeRgseanGSRIHDTDHEMhermesHIPPOHTqPCRHTSFilterhummingbirdHybridExpressiceteaiCheckidealiGCIgGeneUsageILoRegINDEEDIntEREstiSEEdeiSEEpathwaysISLETIsoformSwitchAnalyzeRisomiRsIVASIWTomicsjazzPandaKEGGemUPKnowSeqlefserlemurleslevilimmalimmaGUIlimpaLimROTSLinnormLIPIDIFyLipidTrendlmdmeLPELRcellLRDEM3DropMASTmastRMBttestMEBMEDIPSmessinametagenomeSeqMetaPhORmetaSeqmetaseqR2MethylMixmicrobiomeExplorerMIRitmiRNApathmirTarRnaSeqmitchMODAMOGAMUNmonocleMoonlight2RMoonlightRmosdefMPRAnalyzemsqrob2MSstatsLiPMSstatsLOBDMSstatsPTMMSstatsShinyMulcomMultiRNAflowmultiWGCNAmulttestmuscatNanoStringDiffNanoTubeNBAMSeqnempinetresponseNOISeqNoRCENormalyzerDEOCplusoligoomicplotRomicRexposomeomicsVieweroposSOMOrderedListorthosOutSplicePACEPAIRADISEpairedGSEApath2pathPathNetpathviewPECAPepSetTestphantasusphenoTestpianopickgeneplgemPLPEPolySTestPOWSCppcseqproDAPRONEPROPERProteoMMpsichomicspumaQRscoreqsvaRQUBICrandRotationRankProdRBMrecountrecount3RegEnrichregionReportregspliceRFLOMICSrgsepdRiboDiPArifirifiComparativeRNAdecayRNAsensernaSentryRNAseqCovarImputeRnaSeqSampleSizeRnitsroastgsaROCRolDEROSeqROTSrScudoRTCGAToolboxRUVSeqRvisdiffsafesarkssaseRsatuRnSBGNviewSC3SCBNsccompscCompoundDEscDDscDDboostscdescDotPlotscFastDEscLANEscMETscPCAscQTLtoolsscrapperSDAMSsegmentSeqSeqGateSeqGSEAshinyDSPsiggenessignatureSearchSIMDsimilaRpeaksingleCellTKSiPSiCslingshotSmartPhosSMITEsnmspacexrspammRSpeCondSPICEYSpliceWizSplineDVsplineTimeRSpNeighsrnadiffssizestandRstatTargetsubSeqSurfRsurvcompSVMDOSwarnSeqswitchdesystemPipeToolstadarTBSignatureProfilerTCCTCGAbiolinksTCseqTEKRABberTENETTiDEomicstidybulktidyexposomicstidyomicstidySingleCellExperimenttidySummarizedExperimenttimecourseTOASTtopconfectstradeSeqTraianProttranscriptogramertransitetRanslatometreekoRTSENATTSSrTTMaptweeDEseqtwilightunifiedWMWqPCRvariancePartitionvidgerVISTAvsclustwaddRwebbiocxCell2XDEzenith
DifferentialMethylation (64)
AMARETTObetaHMMborealiscfToolsCMEntcoMethDMRDAMEfinderDamselDiffBinddinoRDMCFBDMCHMMDMRcallerDMRcatedmrseqDSSedgeRENmixEpiDISHEpiMixGenomicOZoneGeoTcgaDataHIREewashummingbirdISLETIWTomicsMAGARmagpiemCSEAmethInheritSimmethylGSAmethylInheritanceMethylMixmethylSigminfimissMethylmistMoonlight2RMoonlightRmsgbsRNanoMethViznempiomicRexposomeplanetPoDCallqsearamrramwasRBedMethylregionalpcsregionReportREMPRnBeadsscMETshinyepicoSIMDSMITESOMNiBUSspikyTCGAbiolinksTENETtidyexposomicsTOASTTRESS
DifferentialPeakCalling (15)
DifferentialSplicing (38)
AMARETTOASpliBANDITSDEXSeqDifferentialRegulationDRIMSeqedgeRerccdashboardEventPointerExClusterfishpondFLAMESGeneStructureToolsIntEREstIsoformSwitchAnalyzeRIVASkissDElimmaMBttestmetaseqR2OutSplicepairedGSEAPECAproActivpsichomicspumaregspliceroastgsasaseRSeqGSEAspammRSpliceImpactRsplicelogicSpliceWizSplicingFactoryTINTSENATUlarcirc
DNA3DStructure (12)
DriverMutation (4)
FunctionalPrediction (36)
BasicSTARRseqcageminercircRNAprofilercrisprScorecrupRdiggitdrawProteinsdrugfindREGADepidecodeRfactRfamatfenrgarfieldGeneStructureToolsGenomicOZoneIsoformSwitchAnalyzeRlncRnaMacarronMetaboDynamicsOmaDBPCANpfamAnalyzeRPhyloProfilePICBplanttfhunterprogenyprojectRRegEnrichRIVERscreenCounterseahtrueSOMNiBUSSurfRviperZygosityPredictor
GenePrediction (29)
GeneRegulation (115)
AffiXcanairpartAMARETTOanota2seqATACseqQCATACseqTFEABasicSTARRseqBCRANKBiFETBindingSiteFinderBioNEROblimabnemBUMHMMCAGEfightRchromVARciceroCNErCOCOACogitoCRISPRseekdamidBinddecoupleRDegCreDEWSeqDiffBinddiggitDOTSeqdreamleteisaRELMERenhancerHomologSearchepidecodeRepiregulonepiregulon.extraepiRomicsepiSeekerFindIT2GDCRNAToolsgeneplastGenomicOZoneGIGSEAGRaNIEGRENITSGSRegGSRIGUIDEseqidr2dINSPEcTISoLDEIVASKBoostLOLAMatrixRidermemesmethylGSAMethylMixMIRAMIRitmiRSMMoonlight2RMoonlightRmpraNADfindernetZooRnullrangesomicRexposomeOmnipathRpandaRPIPETSPostChicagopostNetpqsfinderprimirTSSproActivprofileScoreDistprogenyprojectRqpgraphRBPEqBindRBPSpecificityregutoolsRiboDiPAribosomeProfilingQCrifirifiComparativerigvfRIVERRNAdecayRsubreadRTNRTNdualsRTNsurvivalrTRMrTRMuisarksscGraphVersescMETSELEXSimiCvizSPICEYSPONGEsRACIPETCGAbiolinksTENETterapadogTFBSToolsTFEA.ChIPtigretRanslatometriplexTSSruniversalmotifviperxcore
GeneSetEnrichment (177)
ADAMADAMguiAMARETTOartMSattractAUCellaugere.gseaautonomicsBgeeDBBioQCBLMAbroadSeqbugsigdbrCAFEcanceRcarnationCategoryCBNplotchipenrichChromSCapeclusterProfilerCoGAPScogenacoRdoncpvSNPCSOACTDquerierctdRcTRAPctsGEDamseldcGSAdearseqDeepTargetdmGseaDOSEdreamletdrugfindReasierEasyCellTypeedgeREGSEAEMMAEMTscoreEnrichDOEnrichmentBrowserenrichplotescapeEWCEfamatfedupfenrFGNetfgseafobitoolsgagegCrisprToolsGDCRNAToolsGeDiGeneTonicgep2pepgeselGIGSEAGOaGOgoateaGOexpressGOprogoProfilesgoseqgoSorensengoSTAGGOstatsGRaNIEGSABenchmarkGSALightningGSEABaseGSEABenchmarkeRGSEAlensGSEAmininggseanGSRegGSRIGSVAGWENAhypeRidealINTACTiSEEpathwaysISoLDEKnowSeqleapRlevilimmaLIPIDIFyloci2pathLOLALRcellmarkeRMASTmetaseqR2methylGSAmgsamiRSMmissMethylmitchMoonlight2RMoonlightRmosdefmultiGSEAMultiRNAflowNetSAMNoRCEnpGSEAnullrangesoctadomicsVieweroposSOMopparpairedGSEAPanomiRPASTpath2pathpathlinkRpathviewpathwayPCApianoplaidPPInferqusageRCASReactomeGSAReactomePARegEnrichReportingToolsrGREATRGSEArgsepdRITANroastgsaRTNRTNsurvivalsafeSBGNviewscGraphVersescLANESeqGSEASeqtometrySigChecksimplifyEnrichmentsincellsingscoreSiPSiCSmartPhosspammRsparrowsplineTimeRsSNAPPYSurfRSVMDOSVPsystemPipeRTaxSEAterapadogTFEA.ChIPTissueEnrichTMSigtopGOtoppgenetranscriptogramertransitettgseaUCellvariancePartitionViSEAGOvissExCell2zenith
GeneSignaling (13)
GeneTarget (50)
augere.screenBayesKnockdownbetaHMMbioCancerCaMutQCciceroCLAMPClusterFoldSimilaritycrisprDesigncrisprShinycrisprVersecrisprVizcrupRDeepTargetDifferentialRegulationdistinctdrugTargetInteractionsEGSEAepiregulonepiregulon.extraFindIT2GDCRNAToolsgINTomicsIntramiRExploreRMetaboSignalmiRSMMouseFMMutSeqRNoRCEnullrangespageRankPanomiRpath2pathpathwayPCAQRscoreRCASRegEnrichrigvfrnaEditrSBGNviewsignifinderSite2TargetSMTrackRspatialHeatmapSPICEYsRACIPESVPTENETTOASTwppi
GenomeAssembly (13)
GenomeWideAssociation (35)
GenomicVariation (42)
branchpointerCNAnormCNVRangerCOCOAcpvSNPCrispRVariantsdecompTumor2SigdmGseaELViSgeneAttributionGenomicOZonegmoviziGCinfercnvipdDbkissDEmissMethylMouseFMMSTreeMungeSumstatsmutscanMutSeqRmyvariantpanelcn.mopspathwayPCApgxRpiRareVariantVisRepVizrigvfRIVERscoreInvHapscQTLtoolssemisupSEMPLRseqCATsigneRSomaticSignaturestadartransmogRTVTBwavFeatExtYAPSA
GenomeAnnotation (54)
AnnotationDbiannotatrASpliAssessORFatSNPbambubranchpointerBREW3R.rBSgenomeForgeCOCOAcompEpiToolsDelayedArrayDMRcateEnrichedHeatmapfcScangarfieldGenomeInfoDbGenomicCoordinatesGenomicDistributionsGenomicFeaturesGenomicRangesGrafGenGreyListChIPHDF5ArrayHelloRangesHiCPottsHilbertCurveIWTomicsLOLAmCSEAMEDIPSmicroRNAMIRANoRCEnullrangesPICBplanttfhunterplotgardenerplyxppramQDNAseqRBPSpecificityRCASrGREATRsubreadscPipeSeqinfoSMITEstPipeSummarizedExperimenttxdbmakertximetaUCSC.utilsVariantExperiment
GermlineMutation (1)
HistoneModification (8)
IndelDetection (2)
MetagenomeAssembly
MicrosatelliteDetection
MotifAnnotation (25)
MotifDiscovery (14)
NetworkEnrichment (52)
BioCorBioNetcageminerCBNplotCEMiToolCTDquerierDEGraphDeMANDDEsubsdiggitDNEAEGADEGSEAEnrichmentBrowserenrichViewNetfedupFELLAFGNetGDCRNAToolsGExPipegoateaGSEABenchmarkeRgseanGWENAibhmagreneMIRitmiRNApathmiRspongeRMOMAMoonlight2RMoonlightRMSstatsBioNetomicsViewerpathlinkRPathNetPPInferRedeRRegEnrichRITANRTNRTNdualsRTNsurvivalSANTAscGraphVersesignatureSearchSMITEsplineTimeRtoppgenevipervissEvulcan
NetworkInference (65)
apComplexBayesKnockdownBioNERObnemBulkSignalRCBNplotceRNAnetsimCIMICEcliqueMSCNORfeederCorNettodcanrepiNEMepiregulonFancyfggaFRGEpistasisGDCRNAToolsGENIE3GmicRGRaNIEGRENITSHPiPiNETgrateInformeasureKBoostKEGGlincslionessRlpNetminetMIRitmiRLABmnemMOMAnempinetresponseNetSAMnetZooRpandaRPANRpath2pathPath2PPIPhenoGeneRankerPigengenePrInCEqpgraphR3CPETRedeRRegEnrichregutoolsRITANRTNRTNdualsRTNsurvivalscGraphVerseSimiCvizSingleCellSignalRSPEMSpiecEasisplineTimeRSPONGEspqnsyntenettigreTRONCO
NucleosomePositioning (9)
PeakDetection (23)
QuantitativeTrailLocus
Scaffolding
SequenceMatching (56)
Basic4CseqbcSeqBiostringsBSgenomeBSgenomeForgeCGRphylo2ChIPanalysercigarilloCRISPRseekdagLogoDECIPHERDiffLogoDominoEffectEDIRqueryFastqCleanerhapFabiaheatmapsHelloRangesIMMANipdDbKinSwingRMEDIPSmemesMethTargetedNGSmicroRNAMotif2SiteMotifPeekermotifStackmotifTestRmusclepackFinderperiodicDNAposDemuxpqsfinderpwalignPWMEnrichQSutilsqueeemsrBLASTREDseqrprimerRRHORsubreadscanMiRscanMiRAppscoupscPipeseqLogoseqPatternSICtoolsSimFFPEstPipeStructstringsSynMuttriplexTVTB
SomaticMutation (25)
SplicedAlignment (5)
StructuralVariation (4)
TranscriptomeVariant (7)
VariantAnnotation (36)
AlphaMissenseRAnVILVRSappreci8RcageminercellbaseRgeneAttributionGIGSEAHelloRangesipdDbkatdetectrlineagespotmaftoolsMouseFMmusicatkmyvariantOutSpliceparatiPCANpodkatProteoDiscoPureCNRAREsimREBETrigvfRsubreadseqCATSigsPackSNPediaRStructuralVariantAnnotationsvaNUMTsvaRetrotadartransmogRTVTBVariantAnnotationVCFArray
WorkflowStep (1358)
asuriAUCellBenchHubBUSpaRseChIPanalyserCMEntCytoPipelineCytoPipelineGUIDOtoolsDRIMSeqeasyliftflowGateGladiaTOXGUIDEseqiGCimageTCGAutilsmetabom8metaseqR2MetIDMetMashRminamobileRNAMultiOmicsBridgenondetectsOGREomicRexposomepeakCombinerpgcaphosphonormalizerpipeFrameplyrangesqsvaRqueeemsRcwlRcwlPipelinesRepVizRNAdecayRNAmodRRNAmodR.AlkAnilineSeqRNAmodR.MLRNAmodR.RiboMethSeqSCANVISscBatchQCscCompoundDEscFastDEscoupscruffsitadelaSpatialArtifactsstructstructToolboxsystemPipeRTCGAutilstidyexposomicstRNAscanImport
ExperimentalDesign (35)
ASAFEBERTBioGABUSseqCATALYSTcellmigcountsimQCDspikeInEpipwRExploreModelMatrixgCrisprToolsgemma.RGeomxToolsgrowkarkissDElimpcamobileRNAMOSimMPRAnalyzeMsExperimentmsqrob2OmixerOSATregspliceResidualMatrixrexposomeRnaSeqSampleSizesatuRnscMultiSimseahtrueSWATH2statsSynMutsystemPipeShinysystemPipeToolswpm
Alignment (110)
amplicanASpliassortheadBadRegionFinderbambuBamScalebamsignalsBasic4CseqBBCAnalyzerbcSeqBiostringsBSgenomeForgeCGRphylo2chimeravizChIPanalyserChIPexoQualcigarilloCircSeqAlignTkcrisprBowtiecrisprBwaDECIPHERDegNormdiffHicDiffLogoDominoEffectenhancerHomologSearchesATACFilterFFPEfRagmentomicsfraqgDNAxGenomicAlignmentsggmsaggseqalignggtreegmapRGreyListChIPGuitarIMMANIntEREstKnowSeqLymphoSeqmetabom8metagene2MethTargetedNGSmitoClone2mobileRNAMotifPeekermotifStackmsaMSA2distMultipleAlignmentmusclencGTWnormrnucleoSimodseqompBAMORFikOUTRIDERperiodicDNAptairMSpwalignQSutilsQuasRqueeemsR4RNAraerrBLASTRbowtieRbowtie2RbwaRcwlPipelinesrecoupRFGeneRankRhisat2RiboDiPArprimerRsamtoolsRsubreadsangeranalyseRscanMiRSCOPEscoupscreenCounterscruffsegmentSeqseqcomboSICtoolsSimFFPEsingleCellTKsitePathSpliceImpactRstrandCheckRStructstringssurfaltrsystemPipeRtanggleTFBSToolstransmogRtraseRtreeioTSSrTVTBtxcutrUMI4CatsVplotR
Annotation (151)
AerithAlphaMissenseRaltcdfenvsannaffyannmapannoLinkerannotateAnnotationDbiAnnotationFilterAnnotationForgeannotationToolsannotatrartMSbiobtreeRBiocIObiomaRtbrendaDbBridgeDbRBSgenomeBSgenomeForgeCAGEfightRCategorycategoryComparecellbaseRChIPpeakAnnoChIPseekerchromPlotChromSCapecircRNAprofilerclusterProfilerclustifyrCMEntCompoundDbCoralysiscsawctdRcytofQCDelayedArrayDOSEDOtoolsecolitkEnrichDOenrichplotepiSeekerescapeFGNetFindIT2fobitoolsgarfieldgemma.RGeneTonicgenomationGenomeInfoDbgenomesGenomicFeaturesGenomicOZoneGenomicPlotGenomicRangesGenomicScoresggmsaggtreeggtreeExtraggtreeSpaceginmappeRGOexpressGOfanGOprogoProfilesGOSemSimgoseqgoSorensenGOstatsHDF5ArrayHelloRangeshypeRIbeximmApeximmLynximmReferentimmunotationintansvIsoformSwitchAnalyzeRKEGGRESTmatchBoxMeSHDbimeshesmeshrmiRNApathmitoClone2mygenemyvariantnullrangesoccugeneOGREOmaDBOmicCircosOmnipathROrganismDbipackFinderPCANpdInfoBuilderpfamAnalyzeRplyxppodkatpostNetquantiseqrraerRankMapReactomePArfPredrigvfrolsrrvgorsemmedrtracklayerSCANVISscConformscDiagnosticsscRepertoireSemDistSeqinfosevenCsimonaSingleRSite2TargetsplicelogicSplicingGraphsStructuralVariantAnnotationSummarizedExperimentsvaNUMTsvaRetroSWATH2statstopGOtreeioTSSrtxcutrtxdbmakertximetaUCSC.utilsUlarcircuncoverappLibUniProt.wsVariantAnnotationVariantExperimentVariantFilteringVDJdiveViSEAGOvsclustwppixmapbridgeyarn
BatchEffect (82)
affylmGUIAMARETTOanglemaniaanota2seqbaconbatchCorrBatChefbatchelorBatchQCBatchSVGBatchVariaBEclearBERTBUScorrectBUSseqcellmigCellMixSChromSCapeCoralysiscorralcrumblrDegNormdreamletedgeRENmixerccdashboardfishpondgcapcgemma.RHarmanHarmonizRHVPiasvaIsoformSwitchAnalyzeRKnowSeqlimmalimmaGUILinnormLIPIDIFyMAGARMBECSMetaDICTmetaseqR2MethylAidMMUPHinMultiBaCNewWavenotamenotameStatsnotameVizOpenStatsphenomisPLSDAbatchpmpPOMAproBatchProteinBatcherprotGearpvcaqsmoothramwasrandRotationResidualMatrixrnaSentryRnBeadsroastgsascBatchQCscBFAscMergescrapperseahtruesightssingleCellTKSmartPhosspammRstatTargetSurfRsvatriprvariancePartitionwpmzenith
MultipleComparison (184)
abseqRADAPTaffylmGUIAMARETTOanglemaniaartMSASSETasuribaconbambuBANDITSbaySeqbenchdamicbetaHMMbioCancerbumphuntercalmcanceRcategoryCompareCGENCGRphylo2ChIPseekerChromSCapeclippdaClomialclusterProfilerclusterSeqcnvGSACoGAPScompSPOTcondimentsconsensusSeekeRCoSIAcsawcydarcytomapperdarDEqMSDiffBindDifferentialRegulationdiffHicDiffLogodistinctdksDMRcatedmrseqDOSEDOTSeqDRIMSeqEBSeqedgeedgeREGSEAEMTscoreEpiCompareepiSeekererccdashboardERSSAfabiafdrameFindIT2fishpondgagagagegCrisprToolsGeneOverlapgevaGEWISTGGPAglobalSeqGOexpressGOprogoProfilesgoSorensenGOstatsGPAhammersHarmanHTqPCRiGCIHWIsoformSwitchAnalyzeRISoLDEIWTomicsLBElimmalimmaGUIlimpcaLinkHDLIPIDIFylooking4clustersmaaslin3made4matchBoxMBttestmCSEAmeshesMetaboDynamicsmetagene2metagenomeSeqmetapodmetaseqR2microbiomeExplorerMicrobiotaProcessmiloRmixOmicsmonocleMotifPeekerMouseFMmsamsqrob2MulcomMultiMedMultiOmicsBridgemulttestnipalsMCIANormalyzerDEnormrnormScorenotamenotameStatsnotameVizOCplusomicade4omicRexposomeOMICsPCAonlineFDRopenPrimeROPWeightOrderedListOVESEGparodyPathNetpathwayPCAphenoTestPhyloProfilephyloseqplotGrouperPROMISEpsichomicsqsmoothquantroQUBICR4RNAraerrainReactomePAreconsiregioneReloadedrexposomerhinotypeRroastgsasatuRnscDDSconifyscShapessegmentSeqsemisupseqsetvisSIAMCATsiggenessightsSimFFPEsimilaRpeaksnmspammRSpeCondssvizstatTargetsurfaltrsvaswfdrTENETTiDEomicstidyexposomicstimeOmicstopconfectstradeSeqtriprTTMapTVTBtwilightunifiedWMWqPCRViSEAGO
Normalization (204)
ACMEADAPTaffylmGUIAMARETTOANCOMBCanota2seqartMSassortheadAUCellawstbambuBASiCSBASiCStanbatchCorrbatchelorBatchQCBatchVariabayNormbenchdamicbetterChromVARblimabnbcBOBaFITCAGEfightRCAGErCardinalCATALYSTcellitycellNexusCeTFChAMPchevreulPlotchevreulProcesschevreulShinyChromSCapeCLAMPCNAnormCNVPanelizerCODEXCONSTANdconumeeCPSMCrcBiomeScreencrumblrcsawCSSQcytomapperDAPARDaparToolsheddarDAssembleDCATSdecontXDegNormDEqMSDESeq2DEsubsDiffBinddiffHicdiffuStatsDinodominatRDoschedadreamletDspikeInedgeRELViSEnMCBENmixepimutacionsepiregulon.extrafishpondflowSpecsfuntooNormgCrisprToolsgemma.RGeoDiffGeomxToolsGExPipeGladiaTOXgrowkarHarmanhermesHicAggRHiCcompareHiCDCPlusHiCDOCHTSFilteriNETgrateIntEREstKnowSeqlimmalimmaGUILinnormLIPIDIFylipidrMaaslin2maaslin3MACSQuantifyRMANORMBECSMBQNMEATMEBmetagenomeSeqmetaseqR2methylclockmicrobiomeExplorerminfimissMethylmsqrob2MSstatsMSstatsLiPMSstatsLOBDMSstatsPTMMSstatsQCMSstatsShinymultiHiCcompareMultiOmicsBridgeMultiRNAflowNanoStringDiffnetSmoothnipalsMCIAnormalize450KNormalyzerDEnormrnormScorenotamenotameStatsnotameVizomicsGMFphantasusphenomisphosphonormalizerPigengenePLSDAbatchPOMAppcseqproBatchproDAprolfquaPRONEProstarProteoMMprotGearqmtoolsqPLEXanalyzerqseaqsmoothqsvaRquantMSImageRquantroramwasrandRotationrgoslinRiboDiPARNAdecayrnaSentryRnitsroastgsaRUVcorrRUVnormalizeSanityRscaterSCBNscECODAscHiCcomparescMergeSCnormsconeSCOPEscQTLtoolsscranscrapperscryscuttleSETAsigFeaturesightssimpleSegsingleCellTKslalomSmartPhosspammRSpanielspikyspqnstandRstatTargetsvaTEKRABbertidybulktidyomicstidySingleCellExperimenttidySummarizedExperimentTraianProttransformGamPoiTSSrTurboNormUMI4CatsvariancePartitionWrenchyarnzenith
Pathways (218)
ADAMADAMguianansiannaffyannotateASSIGNattractbioCancerBioCartaImageBioCorBLMAbnemcarnationCategorycategoryCompareCBN2PathCBNplotCellNOptRCEMiToolChromSCapeCHRONOSCLAMPclusterProfilercogenacoRdoncosmosRcpvSNPCTDquerierctdRcTRAPDARTDeeDeeExperimentDeepTargetDEsubsdmGseaDOSEeasieredgeREGSEAEMMAEmpiricalBrownsMethodEnrichmentBrowserenrichplotepiNEMescapeesetVisexploreSEfamatfastLiquidAssociationfedupFELLAFGNetfgseafobitoolsfunOmicsgagegatomGeDiGeneTonicGenomicSuperSignaturegep2pepgeselGExPipeggkeggGlobalAncovaglobaltestGOexpressgoProfilesGOSemSimgoseqgoSorensenGOstatsgraphiteGSEABenchmarkeRgseanGSRegGSVAGWENAhipathiahypeRiPathiSEEpathwaysislifyKEGGemUPKEGGgraphKEGGlincskeggorthologyKEGGRESTKnowSeqleapRLiquidAssociationMetaboDynamicsMetaboSignalMetaPathNetMetaPhORmetaponeMetaProVizmethylGSAMethylMixmgsamirIntegratorMIRitmiRNApathmitologyMLPmnemMoonlight2RMoonlightRMOSClipmultiGSEAMultiRNAflowNCIgraphndexrnempiNetActivityNetPathMinernpGSEAoccugeneOmnipathRontoProc2opparpadmapairedGSEApairkatPanomiRPASTpath2pathPath2PPIpathlinkRpathMEDPathNetpathRenderpathviewpathwayPCAPCANPhenoGeneRankerpianoPinPathPPInferpunKEGGerqpgraphRCXReactomePArGREATroastgsarrvgorsbmlrsemmedsafeSBGNviewSBMLRscGraphVersescToppRspammRsparrowssPATHSSurfRTCGAbiolinksTiDEomicstidysbmlTMSigtopGOtoppgenetransomics2cytoscapewppi
GO (77)
annaffyannotateBgeeDBBiocSetbroadSeqcanceRcarnationCategorycategoryCompareClusterJudgeclusterProfilercogenaCTDquerierDAPARDeeDeeExperimentEGSEAEMMAenrichplotenrichViewNetexploreSEfamatFELLAfenrfggaFGNetfunOmicsgageGDCRNAToolsGeDiGeneTonicgep2pepglobaltestGOaGOGOexpressGOfanGOprogoProfilesGOSemSimgoseqgoSorensengoSTAGGOstatsgoToolsGSEABaseGWENAhipathiaInterCellariSEEpathwaysKnowSeqmgsamitologyMLPmosdefMSA2distNetActivityNetSAMNoRCEOmaDBontoProcRCASRcpiReportingToolsrGREATrolsrrvgoseahtrueSemDistsignatureSearchsimonasimplifyEnrichmentSurfRSVPtopGOTraianProttRanslatomeUniProt.wsViSEAGO
KEGG (59)
ADAMADAMguianansiattractBiocSetbiodbcanceRCHRONOSclusterProfilercogenacoRdonCTDquerierdearseqDEsubsEGSEAEMMAenrichplotfamatFELLAfenrfunOmicsGDCRNAToolsGeDiggkeggginmappeRgoseqgoSorensengraphiteGSEABaseiNETgrateKEGGemUPKEGGgraphKEGGlincskeggorthologyKEGGRESTMetaboDynamicsMetaboSignalMetaPathNetMetaPhORMetIDMetMashRMicrobiomeProfilermirIntegratorMLPOmnipathRpairkatpath2pathPathNetphenomisPinPathpunKEGGerRBPSpecificityRegionalSTscBFAscGraphVerseslalomSVPtransomics2cytoscapeUniProt.ws
Reactome (22)
BioCarta (5)
NCINatureCurated
Preprocessing (282)
a4PreprocABarrayADImputeaffyaffycompaffyILMaffylmGUIaffyPLMAffyRNADegradationAgiMicroRnaAlpsNMRaltcdfenvsAMARETTOAnaquinaroma.lightARRmNormalizationatenaautonomicsAWAggregatorbarbieQBatchQCbeadarrayBEclearbenchdamicBERTbigmelonBioNERObiovizBaseblimabnbcbnemBreastSubtypeRBUSCAGEfightRCAGErCATALYSTcbpManagerCCAFECellBarcodecellityCGHcallCGHnormaliterchevreulPlotchevreulProcesschevreulShinyChromSCapeCLAMPclippdaCluMSIDcodelinkCompensAIDCONSTANdconumeecorralcovEBCPSMcqncrlmmcrumblrCyFj11cytolibCytoPipelineCytoPipelineGUIDAPARDaparToolsheddecontXDEGseqdemuxmixDenoISTDEqMSDEsinglediffHicDMRcateDNABarcodeCompatibilityDNABarcodesdnaEPICODoschedadreamletDspikeIndyebiaseasyRNASeqEDASeqENmixEpiMixepimutacionsepistackesATACExiMiRFilterFFPEfishashflowCutflowGateflowWorkspacefrenchFISHfrmafrmaToolsfuntooNormgCrisprToolsgcrmagDNAxgemma.RgenAriseGGPAGladiaTOXGOTHiCGPAgrayleafspotrGreyListChIPHarmanHELPhermesHMMcopyHTqPCRHTSFilteriasvaiBMQiCheckimageTCGAutilsIsoCorrectoRIsoCorrectoRGUIKnowSeqlimmalimmaGUIlimpaLIPIDIFylumimaCorrPlotMACSQuantifyRMAGARmakecdfenvMANORmarraymatterMBCBMBQNMEATMEDIPSmegadepthmetabom8MetaCytometaseqR2methylclockmethylumiMfuzzMiChipminfimiQCmiRcompmiRNAmeConvertermobileRNAmspmsmsqrob2multipletRMultiRNAflowmultiscanMungeSumstatsmutscannetSmoothnipalsMCIAnnNormnnSVGnondetectsnormalize450KnormrnormScorenotamenotameStatsnotameVizNTWoligoOLINOLINguiomicsGMFopenCytoorthogenePeacoQCpeakCombinerPepsNMRpepStatpianoPiratPOMAprebsprimirTSSproActivproBatchprolfquaPRONEProstarprotGearptairMSpumaQDNAseqQFeaturesGUIqmtoolsqpcrNormqPLEXanalyzerqseaqsmoothquantroQuasRr3CseqR4RNAramwasrandRotationRankMapRbowtie2rCGHRcwlPipelinesrecoupREDseqREMPReUseDataRfastprgoslinRnBeadsroastgsaRPARsubreadRUVSeqsangeranalyseRSCAN.UPCscaterscCB2scDblFinderscdsscECODAscFeatureFiltersciferscmapscmethscMitoMutsconescpscPipescQTLtoolsscruffscTypeEvalscuttleseahtrueSErastersesameshinyepicoshinyMethylSIAMCATsightsskewrSmartPhossnmspammRSpanielspikyspillRspoonSpotCleansquallmssrnadiffSTADyUMstaRgatestatTargetstepNormstPipesvaSWATH2statssynletSynMutTargetSearchTCGAutilstilingArraytpSVGtransformGamPoitRNAscanImportTSSrTurboNormtximetatximportUMI4CatsvariancePartitionvsnwateRmelonyarnzenith
QualityControl (257)
abseqRAerithaffylmGUIaffyPLMAffyRNADegradationairpartalevinQCaltcdfenvsAMARETTOarrayMvoutarrayQualityarrayQualityMetricsartMSAssessORFassortheadATACseqQCBamScalebandleBasic4CseqbatchCorrBatchQCBatchSVGBatchVariabeadarrayBERTbigmelonBioQCCaMutQCCellBarcodecellitycellNexuschevreulPlotchevreulProcesschevreulShinyChIPexoQualChIPQCchipseqChromSCapeCleanUpRNAseqclstutilsCODEXcogeqcCompensAIDCONFESSconsensusconumeecountsimQCCRISPRballcrumblrCytoMDSCytoPipelineCytoPipelineGUIDAPARDaparToolshedDECIPHERdecontXDegNormDExMADiscoRhythmdksDMRcatednaEPICOdoppelgangRDoschedaDOtoolsdreamletDspikeIndupRadardyebiasEDASeqedgeRENmixEpiCompareerccdashboardERSSAesATACFastqCleanerffpeFilterFFPEflowAIflowCleanflowCutfraqGBScleanRgCrisprToolsGENESISggspavisGladiaTOXGloScopeGmicRgrowkarGuitarGWASToolshdxmsqcHELPhermesHTqPCRiasvaibhiCheckidealisobarKnowSeqlimmalimmaGUILIPIDIFylipidrlncRnalumiMAGARMANORmarrmassiRMatrixQCvisMBECSmdpmdqcMDSvisMEDIPSMetaProVizmetaseqR2MethylAidmethylumiminfimiQCmiRcompmobileRNAmonocleMotifPeekerMSnbaseMsQualityMSstatsMSstatsBioNetMSstatsConvertMSstatsLiPMSstatsLOBDMSstatsPTMMSstatsQCMSstatsQCguiMSstatsShinyMultiOmicsBridgemultipletRMWASToolsNanoTubengsReportsnormScorenotamenotameStatsnotameViznucleROLINOLINguiomicsGMFomicsPrintOmixeromXploreOSATpcaExplorerPeacoQCpepVetphenomispianopmpppcseqproBatchproDAprolfquapRolocpvacqcmetricsQDNAseqqPLEXanalyzerqseaquantMSImageRQuasRR453Plus1ToolboxRadioGxramwasRcwlPipelinesrecoupregionReportREMPRfastpRiboDiPAribosomeProfilingQCRITANrnaSentryrnaseqcompRNAshapeQCRnBeadsroastgsaRPARqcRsamtoolsRsubreadsangeranalyseRScale4CscaterscBatchQCscBFAscdssciferscmethsconeSCOPEscPipescrapperscruffscTGIFscuttleseahtruesegmentSeqsesameshinyepicoshinyMethylShortReadSICtoolssightssingleCellTKskewrSmartPhosSNAGEEsnmSpaceTrooperspammRSpanielSpatialArtifactsSPIATspikeLIspikySpotSweepersquallmsstandRstatTargetstPipestrandCheckRSTRprofilerRsynletsystemPipeRsystemPipeShinysystemPipeToolsTargetDecoyTEQCTiDEomicstidybulktidyexposomicstidyomicstidySingleCellExperimenttidySummarizedExperimenttRanslatometraseRUMI4CatsunifiedWMWqPCRvariancePartitionwateRmelonyarnzenith
ReportWriting (44)
abseqRaffycoretoolsannaffyannmaparrayQualityMetricsaugere.coreaugere.deaugere.gseaaugere.screenaugere.soloBiocBookbiocthisBiocWorkflowToolsChIPQCChromSCapecountsimQCDeepTargetDEGreportDiffBindDynDoceasyreportingEnrichmentBrowserGeDiGeneTonicGlimmaGSEABenchmarkeRidealMBECSmetaseqR2mosdefngsReportspcaExplorerqcmetricsR453Plus1ToolboxrebookregionReportsignifinderSpeCondsystemPipeRsystemPipeShinysystemPipeToolstracktablestximetaxmapbridge
Visualization (640)
abseqRACEAerithAlpsNMRanimalculesannmapannoLinkerannotatraroma.lightarrayQualityAssessORFatSNPBANDITSbarbieQbarmixRBasic4CseqBatchQCBatchVariaBenchHubbettrbioassayRbioCancerBioCartaImagebiocGraphBiocPkgDashBioMVCClassbiomvRCNSbiovizBaseBloodGen3ModuleBOBaFITBreastSubtypeRBrowserVizCAGEfightRCAGErCalibraCurvecancerclasscardelinoCARDspacarnationCATALYSTCBNplotcbpManagerCCPlotRCDIcellitycellscapecfDNAProCGHcallCGHregionsCGRphylo2ChemmineOBChemmineRchevreulPlotchevreulProcesschevreulShinyChIPexoQualChIPseekerChromHeatMapchromPlotChromSCapeCLAMPclevRviscliProfilerClonalSimclstutilsclustCompClusterGVisclusterProfilerCNErCNVfilteRCNVizcogenacomaprcombicompEpiToolsComplexHeatmapComPrAncondimentsCONFESScopaCopyNumberPlotscoRdoncorralcountsimQCCoverageViewCPSMCrcBiomeScreenCRISPRballCrispRVariantsctcCySACytoMDSCytoPipelineCytoPipelineGUIdagLogodamidBinddaVisDECIPHERDEGreportdeltaGsegdensvisDepecheRderfinderPlotDESpacedestinyDEXSeqDifferentialRegulationDiffLogoDiscoRhythmdistinctdittoSeqdominatRDOSEDOtoolsdrawProteinsDspikeInDuneEBImageecolitkeiRELViSEMTscoreEnrichDOEnrichedHeatmapEnrichmentBrowserenrichplotepiRomicsepiSeekerepivizrepivizrChartepivizrDataepivizrServerepivizrStandaloneescheResetVisEWCEexploreSEfabiaFGNetFinfoMDSfishpondflowcatchRflowCHICflowClustflowCyBarflowFPflowGraphflowPloidyflowPlotsFlowSOMflowSpecsflowTimeflowVizfmcsRfobitoolsgCrisprToolsGDCRNAToolsGeDiGeneBreakgeneClusterPatterngenefuGeneOverlapgeneplotterGeneRegionScanGeneTonicgenomationGenomicDistributionsGenomicOZoneGenomicPlotgeomeTriDGExPipegg4wayggbioggcytoggmanhggmsaggscggseqalignggtreeggtreeDendroggtreeExtraggtreeSpacegINTomicsGlimmaglycoTraitRgmovizgoateaGOexpressGOfangoSTAGgoToolsgrayleafspotrGRmetricsgrowkarGSABenchmarkGSCAGSEABenchmarkeRGSEAlensGSEAmininggtrellisgVennGvizGWENAhammershapFabiaheatmapsHeatplusHELPHicAggRhicVennDiagramHilbertCurveHilbertVisHilbertVisGUIHistoImagePlotHMMcopyHPAanalyzeHTqPCRhyperdrawiCOBRAidealIdeoVizidiogramigvRILoRegImageArrayimmGLIPHimmunogenVieweriModMixinteracCircosInteractiveComplexHeatmapInterCellariSEEiSEEfieriSEEidiSEEpathwaysiSEEtreeiSEEuislifyIsoBayesIsoformSwitchAnalyzeRivygapSEkaryoploteRKCsmartKEGGemUPKEGGgraphkeggorthologylevilimpcaLIPIDIFylipidrLipidTrendlmdmelncRnalooking4clustersmaCorrPlotmaftoolsmapscapemarinermarkeRmaserMassArraymastRmatchBoxMatrixQCvisMBECSMDSvisMEDIPSmetagenomeSeqMetaProVizMetCircMethylAidmethylscaperMfuzzmiaDashmiaVizmicrobiomeDASimmicrobiomeExplorerMicrobiomeProfilerMicrobiotaProcessMICSQTLmimagermissRowsmitologymobileRNAMOFA2monaLisamonoclemosdefmotifbreakRmotifStackMultiOmicsBridgeMultiRNAflowmultistateQTLmuscatMutSeqRMVCClassNanoMethVizncRNAtoolsNebulosaNetSAMNOISeqNormalyzerDEnotamenotameStatsnotameViznullrangesNuPoPOGREOLINOLINguiOmicCircosomicplotRomicRexposomeomicsGMFOMICsPCAomicsViewerOmixeroposSOMOSATPANRPathoStatpathRenderpathviewpcaExplorerpecoPedixplorerPepsNMRphantasusphylobarPhyloProfilepianoPinPathplotgardenerPLSDAbatchPMScanRpoemPOMAPostChicagoproBAMrproBatchpRolocGUIPRONEpsichomicspunKEGGerPvizqcmetricsqseaquantiseqrquantMSImageRquantsmoothQUBICR453Plus1ToolboxR4RNAramwasRBPEqBindRBPSpecificityRCASPARrcellminerRCMRCSLRCy3RCyjsRDRToolboxReactomePAregionReportreglScatterplotRregutoolsReportingToolsRepVizretrofitrfaRmRFGeneRankrGenomeTracksRGraph2jsRgraphvizrhinotypeRriboSeqRribosomeProfilingQCRNAmodRRNAmodR.AlkAnilineSeqRNAmodR.MLRNAmodR.RiboMethSeqrnaseqcompRTCArtracklayerRvisdiffrWikiPathwaysS4CartographersangeranalyseRsangerseqRsatuRnSBGNviewSC3Scale4CSCANVISscaterscatterHatchscBubbletreescDDscDotPlotscECODAscGraphVerseschexscLANEscLangscmapSconifyscPassportscPipescQTLtoolsscRNAseqAppscruffscTreeVizseahtruesechmseqcomboseqPatternseqsetvisSETAshiny.goslingsightssigneRsignifindersigvarSIMSimiCvizsimplifyEnrichmentsincellslalomslingshotSmartPhosSMTrackRsnifterSomaticSignaturessostaSpanielsparsenetglsSpatialData.plotspatialHeatmapSpatialOmicsOverlaySPIATspillRSplicingGraphsSPLINTERsplotssquallmsssvizstatTargetstPipeSummarizedHeatmapsurfaltrSurfRsurvcompsynlettanggleTargetDecoyTCseqTENETTiDEomicstidyexposomicstidyprinttilingArraytimescapeTMSigTnTtomodatomoseqrtopGOtrackViewertradeSeqtranscriptogramerTreeAndLeaftreekoRtRNAtRNAdbImporttRNAscanImportTSARTSCANTSSrTVTBUlarcircUMI4CatsuncoverappLibunifiedWMWqPCRvelovizVennDetailvidgerViSEAGOvisiumStitchedVISTAVoyagervsclustwiggleplotrxmapbridgeYAPSAyarn
Network (173)
ADImputeAMARETTOAMOUNTAINANFannoLinkerBayesKnockdownbioCancerBioCorBioNARBioNEROBioNetbnemBulkSignalRcageminerCARNIVALCausalRCBNplotCCPlotRCellNOptRCEMiToolceRNAnetsimCeTFcliqueMSCNORfuzzycogeqcCorNettocosmosRCOSNetcsdRCTDquerierdcanrdecoupleRDeepPINCSDEGraphDeMANDDEsubsdiffuStatsDNEAdominoSignaldoubletroubleDriverNetdrugfindRdrugTargetInteractionsEGADEGSEAELMEREnrichmentBrowserenrichViewNetepiNEMepiregulonepiregulon.extraExpoRiskRFancyfedupFELLAfggaFGNetgatomGDCRNAToolsGENIE3GExPipeglmSparseNetGmicRgoateaGOSemSimGPlinksRGraphAlignmentGraphATGraphExperimentgraphiteGRENITSGSEABenchmarkeRgseanGWENAHPiPIMMANiModMixiNETgrateInformeasureKBoostKEGGemUPKEGGlincsKinSwingRleviLinnormlionessRLiquidAssociationMAGARmartiniMetaboSignalMetaPathNetMethylMixMetIDMetNetmiaSimminetmirIntegratorMIRitmiRLABmnemMODAMOGAMUNMOMAMoonlight2RMoonlightRMSstatsBioNetMultiOmicsBridgendexrnempinetboostNetPathMinernetresponseNetSAMnetSmoothnetZooRomicsViewerOmnipathRpageRankpairkatpandaRPath2PPIpathifierpathlinkRPathNetPCANPhenoGeneRankerPigengenePinPathPIUMApostNetPPInferpunKEGGerQUBICR3CPETRBGLRCXRCy3RedeRReducedExperimentRegEnrichregutoolsRGraph2jsRITANRLassoCoxrrvgorsbmlrScudoRTNrTRMrTRMuirWikiPathwaysSANTASBMLRscGraphVerseSimiCvizSingleCellSignalRSMITEspatialHeatmapSPEMSTRINGdbsyntenetTCGAbiolinksternarynettidysbmltoppgenetranscriptogramertransomics2cytoscapeTreeAndLeafTRONCOvissEvtpnetwppiXINA
GenomeBrowsers (3)
WorkflowManagement (6)
StatisticalMethod (897)
AMARETTOAPLASSETasuriAWFisherbaconBANDITSBatchVariaBEclearbeerBioCorBiocSklearnBioQCBUScorrectBUSseqCATALYSTCatsCradleCBN2PathCIMICEClustAllClusterJudgeClusterSignificanceCMEntconsICAcovEBcpvSNPCTSVCytoDxCyTOFpowerCytoGLMMDAssembledcGSAdecompTumor2SigdeconvRdecoupleRdeltaCaptureCDeMANDDeMixTDESpaceDExMADifferentialRegulationdiscordantdistinctdivergencednaEPICOdStructEBSeqEmpiricalBrownsMethodepimutacionsfabiaFancyFeatSeekRfggafishashflowGraphgarfieldGENESISGGPAglmSparseNetGPAGSARgscreendgseanHarmanHDTDHIBAGHiCPottsHiLDAiasvaiCAREINDEEDinfercnvIntramiRExploreRIsoBayesIsoformSwitchAnalyzeRIWTomicsjazzPandakmcutLACHESISlefserleviLheuristiclimpcaLipidTrendMAImbQTLMCbiclustMDTSMeasurementError.corMeLSImetaCCAMetaCytomethInheritSimmethylclockmethylInheritanceMethylMixMetIDmidasHLAmissRowsmogsaMOSClipMPRAnalyzeMSstatsResponseMulcomMultiBaCMultiMedMultiOmicsBridgemuscatMutSeqRnetboostnpGSEAnucleoSimomicRexposomeonlineFDROpenStatsORFhunteROscopepadmapageRankPAIRADISEpandaRpecophenomisphosphonormalizerplotGrouperPLSDAbatchPOMAPPInferprofileScoreDistQRscorequantiseqrQUBICqueeemsrandPackrandRotationRankProdregionalpcsRFGeneRankRGSEARJMCMCNucleosomesROCpAIRolDErqtRUVnormalizesafeSAIGEgdsscBatchQCscCompoundDEscdescFastDEscoupselectKSigsSETAsigneRsigvarSNPRelateSomaticSignaturesspaSimspillRSpliceImpactRSPOTlightsrnadiffSTADyUMstageRSTATegRaSummixsurvtypesvaSwarnSeqswfdrswitchBoxsynergyfindertargetTFARMtidyexposomicsTMixClusttpSVGTrajectoryGeometrytreeclimbRtreekoRtweeDEseqUniquornwaddRXAItestYAPSAzitools
Bayesian (91)
affylmGUIALDEx2AMARETTOapeglmASSIGNBaalChIPbaconBANDITSbandlebanoccbarmixRBASiCSBASiCStanBayesKnockdownbaySeqbeerBG2BUMHMMBUScorrectBUSseqcalmCBN2PathCBNplotccfindRceldacellmigClomialClustIRRCoGAPScovEBctsGEdecontXDEqMSDESeq2DifferentialRegulationDiPPERDMCFBDOTSeqEBcoexpressedgeRgeminigemma.RGmicRgraperGRENITSGWAS.BAYESHiCPottsHiLDAHiSpaRhummingbirdIgGeneUsageinfercnvINTACTIsoBayesKBoostlimmalimmaGUIlimpaMetaboDynamicsmetaseqR2MOFA2NormalyzerDEnormromicplotROpenStatsPACEpcaMethodsphenopathplasmutproDAPROPSprotGearpumaqueeemsR3CPETretrofitRIVERRJMCMCNucleosomesroastgsaSanityRsccompscDDscDDboostscdescMETspammRStatescopeRternarynettigreTRONCOwavClusteR
Classification (194)
a4Classifa4CoreadverSCarialAIMSAlpsNMRantiProfilesBadRegionFinderbandleBiocNeighborsbioDistbiosignerBreastSubtypeRBUMHMMCAENcancerclassCardinalCepoCGRphylo2CHETAHChromSCapeClassifyRclstclstutilsClusterSignificanceClustIRRCMACNVPanelizercolacompSPOTCONFESSconsensusOVconsICACoralysisCoreGxCOSNetCrcBiomeScreenCRImagectcCytoDxcytoMEMdada2DaMiRseqDECIPHERdecontamDeMixTdemuxmixdemuxSNPDepecheRDirichletMultinomialdominatRdoubletroubleeasierEGSEAepigenomixescapeevaluomeRfastsegfggaflowcatchRgagaGARSgeneClassifiersgenefugeNetClassifierGenVisRgevaGGPAggtreeDendroglmSparseNetGPAgplsGrafGengrapergrayleafspotrGSgalgoRHiCPottsHybridExpressIbexiCOBRAidr2dimmApeximmLynxiNETgrateIntrinsicScanislifyiterativeBMAjvecforkatdetectrkebabsKnowSeqLedPredlefserLinkHDLIPIDIFylncRnalogicFSlooking4clustersmade4maftoolsMAImaPredictDSCmarkeRmassiRMEBmessinametabinRmetagenomeSeqMetaPathNetMethPedmicrobiomeExplorerMiPPmiRNAtapmixOmicsMLInterfacesMLSeqMPRAnalyzeMultiOmicsBridgemultipletRnempiNetPathMinernipalsMCIAnormrNuPoPoctadomicade4ORFhunteRPAApathMEDpathwayPCAPDATKpecoPharmacoGxphenoTestphyloseqPigengenePIUMAplanttfhunterPLSDAbatchPoDCallPolytectPOMApreciseTADprocoilpRolocPROPSquantiseqrqueeemsRadioGxrexposomeRFGeneRankrfPredRGSEARmagpieROCpAIroplsrScudosampleClassifierSC3scAnnotatRscClassifyscConformscDiagnosticsscdsSCFAscmapscoupscReClassifyscRepertoireSemDistsemisupsevenCSIAMCATSigChecksigFeaturesimpleSegsingISTSingleRSpatialArtifactssquallmsssPATHSStatialSubCellBarCodesurvClustSVMDOswitchBoxthyroidBRStimeOmicsTrIdentTTMaptwoddpcrvbmpwavFeatExtXAItestXeva
Clustering (289)
adSplitairpartAMARETTOANFartMSASURATbandleBanksyBayesSpaceBicAREBiocNeighborsBioCorbioDistblusterBOBaFITBUScorrectBUSseqCAGErcanceRCardinalCATALYSTccfindRccImputeCDIceldacellmigcellNexusCellTrailscenscytCGENCGRphylo2ChemmineOBChemmineRCHETAHChromSCapeciceroClomialCluMSIDClustAllclustCompclusterExperimentClusterFoldSimilarityClusterGVisClusterJudgeclusterProfilerclusterSeqClusterSignificanceclusterStabClustIRRclustSIGNALCoGAPScogenacolaconcordexRCONFESSConsensusClusterPlusconsensusOVCoralysisCOTANcrumblrctcctsGEcyanoFilterCySAcytoKernelcytoMEMddPCRclustdebrowserDECIPHERdeltaGsegDepecheRDESeq2destinydiffcytdiffHicDirichletMultinomialDNEADOtoolsDrugVsDiseaseDuneDuplexDiscovereREBarraysedgeReiRELViSevaluomeRfabiafastreeRfcScanFEASTFGNetflowCHICflowClustflowCyBarflowDensityflowFPflowMatchflowMeansflowMergeflowPeaksFlowSOMfmcsRFuseSOMGARSGateFinderGeDigenefugeneRecommendergeneRxClusterGenomicOZoneGenomicSuperSignatureGGPAggtreeggtreeDendroGmicRGOexpressGOproGOSemSimgoSorensengoSTAGGPAGSEAminingGSgalgoRGWENAhapFabiaHGCHiCDOChierGWAShierinfHIPPOhoodscanRhopachILoRegimcRtoolsimmGLIPHimmLynximmunoClustiModMixiNETgrateIntrinsicScaniSEEiSEEfieriSEEidiSEEuisomiRsjvecforkebabsLEAlimmaLinnormlooking4clustersM3CMacarronmade4MAGARMantelCorrMAPFXmassiRmbkmeansMCbiclustmeshesmetabinRMetaboDynamicsMetaCytoMetaDICTmetagenomeSeqMetaProVizmetaseqR2MfuzzmicrobiomeExplorermiRSMMLInterfacesMLSeqmobileRNAMOGAMUNmogsaMOMAmonocleMPACMSTreemultiClustMultiRNAflowmultiWGCNAnetboostnethetNetPathMinernetresponseNetSAMnetSmoothnipalsMCIAomadaomicade4OMICsPCAPANRPDATKphantasusphenomisphenoTestphyloseqPigengenepipeCompPIUMApoemPolytectPOMApowerTCRppcseqpreciseTADpRolocprotGearpumaQUBICRCSLRDRToolboxregioneReloadedrexposomeRigraphlibRIVERroastgsarrvgorScudoSANTASC3scBubbletreescCB2scDDscDDboostscDiagnosticsscDotPlotscECODASCFAscGPSscLANEscMETscranscrapperselectKSigssemisupSIAMCATSIMLRsimplifyEnrichmentsincellsingleCellTKSingleRslingshotSmartPhossmoothclustSomaticSignaturesspammRSpanielspARISpatialCPiespatialHeatmapSpeCondSpectralTADSPIATsquallmsSTATegRastJoincountstPipeSummarizedHeatmapsurvClustsurvtypeSynExtendsystemPipeShinysystemPipeToolsTADComparetanggleTCseqtidybulktidyomicstidySingleCellExperimenttidySummarizedExperimenttimeOmicsTMixClustTMSigtomodatoppgenetradeSeqtranscriptogramertreeiotreekoRTRONCOTSSrTTMapViSEAGOvsclustYAPSAyarn
DecisionTree (8)
DimensionReduction (98)
AffiXcanAPLautonomicsBanksyBiocSingularBiocSklearnccImputecellityCellMentorCellTrailschevreulPlotchevreulProcesschevreulShinyCLAMPClustAllCoGAPScombiCoralysiscorralcrumblrCytoMDSDelayedTensordensvisDepecheREMTscoreesetVisFinfoMDSfmrsgcatestGENESISgep2pepggscggspavisglmSparseNetglobalSeqILoRegimmLynxiNETgrateiSEEiSEEfieriSEEidiSEEulemurlfaM3Dropmade4MatrixQCvismatterMDSvismissRowsMOFA2MOSClipMultiOmicsBridgeNebulosanetboostnetSmoothomicsGMFOMICsPCApathwayPCApcaExplorerPhyloProfilePigengenePIUMAPLSDAbatchpoemPOMAqmtoolsRAIDSRCMRCSLRDRToolboxReducedExperimentreglScatterplotRretrofitrnaEditrSC3scaterscBFAscECODAschexscryscTensorscTGIFscTypeEvalSETAslalomsnifterssPATHSStabMapSTATegRatenXploretimeOmicstpSVGtricyclevelovizweitrixwSIRzinbwave
FeatureExtraction (68)
anglemaniabambubiosignerBUMHMMBUScorrectBUSseqCaDrAcenscytClusterFoldSimilarityconsICACPSMDepecheRdiffcytevaluomeRFEASTFeatSeekRGARSgrayleafspotrHIREewasiasvaimmunogenVieweriSEEiSEEfieriSEEidiSEEuislifyKnowSeqM3DropmaftoolsmartiniMicrobiotaProcessMOMAmonaLisamultiClustMultiOmicsBridgeORFhunteRpathMEDpathwayPCApostNetpreciseTADquantiseqrraerrCGHRcpiRDRToolboxretrofitRFGeneRankrnaEditrrScudosarksscECODAscMETscrappersfiSIAMCATsigFeatureSpatialDeconSpectralTADSplineDVsquallmssynletTADCompareTDbasedUFETDbasedUFEadvtimeOmicswavFeatExtXAItestzFPKM
GraphAndNetwork (137)
airpartANFapComplexBatchQCbiocGraphBioMVCClassBioNARBioNEROBioNetCausalRCBN2PathCEMiToolceRNAnetsimCHRONOSCIMICEClusterFoldSimilarityCorNettoCOSNetcsdRDARTdcanrDeepPINCSDEGraphDEsubsdiffuStatsEGADEGSEAEnrichmentBrowserepiregulon.extraFELLAfggafobitoolsGeneNetworkBuilderGENIE3glmSparseNetGmicRgoProfilesgoSorensenGOstatsGRaNIEgraphGraphAlignmentGraphATgraphiteGRENITSGSEABaseGSEABenchmarkeRgseanGWENAHGChipathiahyperdrawhypergraphibhIMMANiNETgratejvecforKBoostKEGGemUPKEGGgraphKEGGlincskeggorthologyleviMAGARmagrenemartiniMetaboSignalminetmirIntegratorMOGAMUNMOSClipMVCClassNCIgraphnetboostnethetNetPathMinernetresponseNetSAMnetSmoothnetZooROmnipathRpaircompvizpairkatpandaRPANRPathoStatpathRenderpathviewPedixplorerPhenoGeneRankerPigengenePinPathPIUMAplotGrouperpoemPPInferpunKEGGerqpgraphQuaternaryProdR3CPETRBGLRCy3RCyjsRedeRRGraph2jsRgraphvizRigraphlibRITANrsbmlrScudoRTNRTNdualsRTNsurvivalrTRMrTRMuirWikiPathwaysS4CartographerSBGNviewSBMLRscGraphVersesincellsparsenetglsspatialHeatmapSPIASpiecEasisplineTimeRspqnsyntenetternarynettidyexposomicstidysbmlTMSigtranscriptogramerTreeAndLeafTRONCOVennDetailwppi
HiddenMarkovModel (15)
MultidimensionalScaling (5)
PrincipalComponent (58)
acdeAffiXcanautonomicsBatchQCBiocSingularccImputeChromSCapeClustAllClusterSignificanceCOCOAcorralDESeq2DiscoRhythmEMTscoreENmixesetVisgcatestGENESISGenomicSuperSignatureHarmaniModMixiNETgrateKBoostlfalimpcamade4missRowsmogsaMultiBaCMultiRNAflowOMICsPCApadmaPathoStatpathwayPCApcaExplorerPCAtoolsphantasusphenopathPigengenePLSDAbatchPOMApsichomicsRAIDSramwasroplsrqtscECODAscPCAscrapperscryscTypeEvalSNPRelatesquallmsSTATegRaSurfRsystemPipeToolstenXplorevsclust
Regression (153)
AffiXcanaffylmGUIairpartAMARETTOanansianota2seqasuriautonomicsAWAggregatorbaconbambubarbieQbiotmleBUMHMMCalibraCurvecalmCardinalcellmigCeTFCFAssaychipenrichCONFESSconsensuscrumblrCTSVCytoDxCytoGLMMDAssembledearseqdeconvRdemuxmixDepInfeRDESeq2DinoDiPPERDMCFBdmrseqDoschedaDOTSeqdreamleteasieredgeedgeReisaRENmixExploreModelMatrixExpoRiskRfindIPsfishpondflowPloidyfmrsGApredictiongCrisprToolsGEMGENIE3GenomicOZoneGIGSEAglmGamPoiglmSparseNetGlobalAncovaglobalSeqGMRPgplsGRaNIEgrapergwasurvivrHiCPottshierinfIFAAIgGeneUsageIVASKBoostkebabsLEAlemurlfalimmalimmaGUIlimpalimpcaLinkHDLRcellLRDEMAGARmbQTLmetaCCAmetaseqR2methylGSAmethyLImp2methylSigMetNetmirTarRnaSeqmistyRmixOmicsMOSClipmsqrob2MSstatsResponsemultiWGCNANewWaveOAtoolsomicRexposomeOPWeightPACEpairkatpathwayPCApenglsPepSetTestpmmPOMAproDAprotGearRAMENRankMapResidualMatrixrifiRIVERRLassoCoxRNAdecayrnaEditrroastgsaRolDEroplsrqtsaseRsatuRnsccompscLANEscMETscQTLtoolssevenCSIAMCATSOMNiBUSspammRsparsenetglsspecklespillRsplineTimeRSPONGEsquallmsswitchdetidyexposomicstimeOmicstopconfectstpSVGtradeSeqtransformGamPoiTrendyvariancePartitionweitrixwSIRXAItestxcorezenith
StructuralEquationModels (1)
SupportVectorMachine (11)
Survival (48)
asuricenscytCFAssayClassifyRcompSPOTCoreGxCPSMCytoDxfindIPsfmrsGDCRNAToolsgeneClassifiersglmSparseNetGNOSISGSgalgoRgwasurvivriNETgrateiPathivygapSEkmcutLACHESISmaftoolsmessinamiRspongeRMoonlight2RMoonlightRMOSClipMPACmultiClustpathwayPCAPDATKpsichomicsRadioGxRLassoCoxrnaEditrrnaSentryroastgsarqtRTNsurvivalSCFAsimpleSegspicyRsurvClustsurvtypeSVMDOTCGAbiolinksTENETTOP
TimeCourse (56)
acdeaffylmGUIAMARETTOASpliblaseCellNOptRCellTrailsCNORdtCNORodeCoGAPSCONFESSctsGEcycledearseqdeltaGsegDiscoRhythmDMRcateedgeedgeREventPointerflowTimeGOexpressGRENITSGRmetricsINSPEcTLACHESISlimmalimmaGUILiquidAssociationmaSigProMetaboDynamicsmetaseqR2MfuzzmirTarRnaSeqMOSimmsqrob2MSstatsMultiRNAflowpenglsrainRNAdecayRnitsroastgsaRolDERTCAscLANEspammRsplineTimeRTCseqTiDEomicstigretimecoursetimeOmicsTMixClusttradeSeqTrendy
Infrastructure (647)
affxparseraffyContamaffyioAllelicImbalanceAnnotationFilterAnnotationForgeAnnotationHubAnVILAnVILAzAnVILBaseAnVILBillingAnVILGCPAnVILPublishAnVILVRSAnVILWorkflowaroma.lightarrayMvoutBaseSpaceRbasiliskbasilisk.utilsbeachmatbeachmat.hdf5beachmat.tiledbBenchHubbioassayRBiobaseBioc.gffBiocAzulBiocBaseUtilsBiocBookBiocBuildReporterBiocCheckBiocDuckDBBiocFHIRBiocGenericsBiocHailBiocMaintainerAppbiocmakeBiocParallelBiocPkgDashBiocPkgToolsbiocroxytestBiocSklearnBiocVersionbiocViewsbiodbBioMVCClassBiostringsbiovizBaseBSgenomeBSgenomeForgeBufferedMatrixBufferedMatrixMethodsbumphunterBumpyMatrixCardinalCardinalIOcBioPortalDataCellBenchcellNexusCGHbaseChemmineOBChemmineRchimeravizChIPseqRChIPsimChromatogramscigarilloconvertCTDquerierCyFj11dbSequenceDeeDeeExperimentDelayedArrayDelayedDataFrameDelayedMatrixStatsDelayedTensorDFplyrdir.expirydoseRDuckDBArrayDuckDBDataFrameDuckDBGRangesDuckDBSpatialDynDoceiRepivizrepivizrDataepivizrServerepivizrStandaloneExperimentHubExperimentHubDataExperimentSubsetfastRangesflowBeadsflowcatchRflowCoreflowVizfmcsRfraqGCPtoolsgDRimportgDRstylegDRutilsGDSArraygdscloudgdsfmtgenomeIntervalsGenomicAlignmentsGenomicCoordinatesGenomicFeaturesGenomicFilesGenomicInteractionsGenomicRangesGenomicScoresGenomicTuplesGenVisRGEOmetadbggbioggcytoGraphExperimentgrowkarh5mreadHDF5ArrayHerperHiCBricksHoloFoodRHuBMAPRHubPubIcensilluminaioimageFeatureTCGAInteractionSetIRangesiSEEdeiSEEhexiSEEindexiSEEpathwayskoinarLoomExperimentlpsymphonyLRBaseDbiMatrixGenericsmatterMeSHDbiMetaboAnnotationMetaboCoreUtilsMetIDMGnifyRmicroRNAmimagerModstringsMoleculeExperimentmonocleMsBackendMassbankMsBackendMassIVEMsBackendMetaboLightsMsBackendMetabolomicsWorkbenchMsBackendMgfMsBackendMspMsBackendParquetMsBackendSqlMsCoreUtilsMsExperimentMsFeaturesMSnbaseMsStashMultiAssayExperimentMultiAssaySpatialExperimentMultimodalExperimentMultipleAlignmentMVCClassmzRoligoClassesOmicsMLRepoRontoProcontoProc2OrganismDbiOSTA.datapanppdInfoBuilderpgen2gdsPhIPDatapipeFramePlinkMatrixplyinteractionsplyrangespreprocessCoreProtGenericsPSMatchQFeaturesQTLExperimentR453Plus1ToolboxRaggedExperimentrawDiagrawrrRBedMethylRcollectlrebookRedisParamReducedExperimentRegaReUseDatarexposomerhdf5rhdf5clientrhdf5filtersRhdf5libriborRmzTabMRNAmodRRNAmodR.MLRProtoBufLibRSeqAnRTCAS4ArraysS4VectorsSCArrayscaterscPassportscTreeVizSeqArraySeqinfoSharedObjectshinybiocloaderSingleCellAlleleExperimentSingleCellExperimentSNPRelateSpanielSparseArraysparseMatrixStatsSpatialData.dataSpatialData.plotspatialdataRSpatialExperimentSpatialExperimentIOSpectraSpectraQLSpectraStashSpectriPySRAdbssrchStructstringsSummarizedExperimentsystemPipeRsystemPipeShinysystemPipeToolsTENxIOterraTCGAdataTFARMtidybulktidyFlowCoretidyomicstidyprinttidySingleCellExperimenttidySpatialExperimenttidySummarizedExperimentTileDBArraytkWidgetsTnTtopdownrTreeSummarizedExperimenttxdbmakerUCSC.utilsUniProt.wsupdateObjectVariantExperimentVCFArrayVisiumIOweaverwebbiocwidgetToolsXeniumIOxenLiteXVectorZarrArray
ThirdPartyClient (38)
AnnotationHubAnVILAzAnVILGCPAnVILVRSbedbaserBiocAzulbrendaDbBrowserVizcBioPortalDatacbpManagercellxgenedpCoSIAExperimentHubExperimentHubDataGA4GHclientGCPtoolsgemma.RGEOqueryginmappeRgraphiteHuBMAPRHubPubigvRKEGGlincsKEGGRESTlpsymphonyncRNAtoolsOmnipathRRCy3RCyjsRegarfaRmRGraph2jsrigvfrpxrWikiPathwayssevenbridgestoppgene
DataImport (364)
aCGHaffxparseraffyioaffylmGUIalabasteralabaster.basealabaster.bumpyalabaster.filesalabaster.maealabaster.matrixalabaster.rangesalabaster.scealabaster.schemasalabaster.sealabaster.spatialalabaster.stringalabaster.vcfAlpsNMRAMARETTOanndataRAnnotationHubAnnotationHubDataAnVILGCPArrayExpressASICSassortheadautonomicsBamScalebamsignalsbandleBaseSpaceRBasic4CseqBayesSpacebeachmatbeachmat.hdf5beachmat.tiledbbedbaserBenchHubBgeeDBbigmelonBindingSiteFinderbioassayRBioc.gffBiocAzulBiocDuckDBBiocFHIRBiocFileCacheBiocIObiodbbiomformatBioNetBiostringsbiscuiteerbrendaDbBSgenomeForgebugsigdbrCAGEfightRCardinalIOCATALYSTcbpManagerceldacellmigRationcellxgenedpChemmineOBChemmineRchevreulPlotchevreulProcesschevreulShinychihayaChIPanalyserchipseqClonalSimcmapRCNErCNVfilteRcodelinkcogenaCONCERTDRCONFESSCopyNumberPlotsCoSIActcCTdataCTDquerierctdRCTexploreRCyFj11cypresscytolibcytomappercytoMEMCytoMLcytoviewerDAPARDaparToolsheddbSequenceDECIPHERdeepSNVDegNormdittoSeqDMRcateDNEADoschedaDropletUtilsDspikeInDuckDBArrayDuckDBDataFrameDuckDBGRangesDuckDBSpatialeasyliftedgeeiRENmixExperimentHubExperimentHubDataExperimentSubsetfaersFLAMESflowGateflowSpecsflowTimeflowWorkspacefmcsRGCPtoolsgDRgDRimportgdscloudgdsfmtgeminigemma.RGeneRegionScangenomeIntervalsGenomicAlignmentsGenomicDataCommonsGenomicFilesGenomicInteractionsGEOfastqGeomxToolsGEOquerygeselggkeggggtreeGraphExperimentgrowkarGuitargypsumh5mreadHDF5ArrayhdxmsqcHelloRangesHELPHicAggRHiCaptuReHiCBricksHiCExperimentHiCoolHiCParserHiCPottsHoloFoodRhparHTqPCRHuBMAPRHubPubibhilluminaioimageFeatureTCGAimcRtoolsISAnalyticsiscreamiSEEhubiSEEtreeIsoformSwitchAnalyzeRIWTomicskarioCaSkaryoploteRKnowSeqlimmalimmaGUIlimpaLIPIDIFyLOBSTAHSLoomExperimentMACSQuantifyRMAGARmakecdfenvMANORMassArraymatterMDTSmegadepthmemesmetabom8metaseqR2MethTargetedNGSMGnifyRmiamiaDashminfimitchmitoClone2ModstringsMoleculeExperimentmonoclemotifStackMsBackendMassbankMsBackendMassIVEMsBackendMetaboLightsMsBackendMetabolomicsWorkbenchMsBackendMgfMsBackendMspMsBackendParquetMsBackendSqlMsExperimentmsgbsRMSnbaseMsStashMSstatsConvertMuDataMultipleAlignmentmusclemzIDmzRNanoMethVizNanoStringNCToolsncRNAtoolsndexrnormrnotamenotameStatsnotameViznucleROAtoolsoligoOmnipathRompBAMopenCytoORFikOSTA.dataOTUbasePepsNMRperiodicDNApfamAnalyzeRpgen2gdspgxRpiplotGrouperpodkatprofileplyrProteinBatcherProteoDiscopumaQFeaturesGUIqPLEXanalyzerQSutilsQTLExperimentqueeemsR453Plus1ToolboxR4RNARarrRBedMethylRBioFormatsrBLASTRcpiRcwlPipelinesRCXReadqPCRrecountrecount3recoupREMPReUseDatarexposomerfaRmrhdf5rhdf5clientrhdf5filtersRhtslibRiboDiPARImmPortrmspcRnBeadsroastgsarpxRqcRsamtoolsRtpcartracklayerScale4CSCArraySCArray.satscaterscCB2scDatavizscGPSschexscmapSCOPEscoupscPassportscPipescuttleseahtruesegmentSeqsevenbridgessevenCShortReadSICtoolssigvarSimFFPEsimPICSingleCellAlleleExperimentSingleCellExperimentsingleCellTKSiPSiCsitadelasnapcountSpaceTrooperspammRSpanielspARISpatialArtifactsSpatialData.dataspatialdataRSpatialExperimentSpatialExperimentIOSpatialOmicsOverlaySpectraStashSPIATSpotCleanSRAdbstPipeStructstringsStructuralVariantAnnotationSurfRsvaNUMTsvaRetroSynExtendsystemPipeRsystemPipeShinysystemPipeToolstanggleTCGAutilsTENxIOterraTCGAdataTPP2DTraianProttransomics2cytoscapetraseRtreeiotRNAdbImporttRNAscanImportTRONCOTSSrTVTBtxdbmakertximetatximportUCSC.utilsuniversalmotifVariantAnnotationVisiumIOvisiumStitchedXeniumIOZarrArrayzellkonverter
DataRepresentation (174)
alabasteralabaster.basealabaster.bumpyalabaster.filesalabaster.maealabaster.matrixalabaster.rangesalabaster.scealabaster.schemasalabaster.sealabaster.sfealabaster.spatialalabaster.stringalabaster.vcfanndataRassortheadBaseSpaceRBatchVariabeachmatbeachmat.hdf5beachmat.tiledbBenchHubbioCancerBiocDuckDBBiocFHIRBiostringsBSgenomeBSgenomeForgeBumpyMatrixCAGEfightRcbpManagercellmigRationCellTrailschihayachromPlotcmapRcogenaconsensusCrispRVariantsCTDqueriercytolibcytoMEMCytoMLdaVisdbSequenceDeeDeeExperimentDelayedArrayDelayedDataFrameDelayedMatrixStatsDelayedRandomArrayDelayedTensorDEPDepecheRDFplyrdoseRDuckDBArrayDuckDBDataFrameDuckDBGRangesDuckDBSpatialesetVisExperimentSubsetflowDensityflowPlotsflowSpecsflowWorkspaceGA4GHclientGDSArrayGenomeInfoDbGenomicCoordinatesGenomicDistributionsGenomicInteractionsGenomicRangesGenomicTuplesGenVisRGloScopeGOexpressGraphExperimentgVennh5mreadHDF5ArrayHicAggRILoRegimageFeatureTCGAInteractionSetipdDbIRangesKEGGlincslooking4clustersLoomExperimentMACSQuantifyRmaftoolsmatterModstringsMoleculeExperimentmonocleMultiAssayExperimentMultiAssaySpatialExperimentMultiBaCMultiDataSetMultimodalExperimentMultipleAlignmentomicsGMFOmicsMLRepoROMICsPCAOmixerOmnipathRomXploreontoProc2openCytooposSOMOSATOSTA.dataPedixplorerphantasusPhIPDataPhyloProfilepipeCompplyrangesProteinBatcherQTLExperimentR453Plus1ToolboxR4RNARaggedExperimentrBiopaxParserRcpiReducedExperimentReportingToolsResidualMatrixrexposomeRImmPortRvisdiffS4ArraysS4VectorsSC3ScaledMatrixSCArraySCArray.satscaterscmapscRNAseqAppseahtrueSeqArraySeqinfoSETASingleCellAlleleExperimentSingleCellExperimentSpanielSparseArraysparseMatrixStatsSpatialData.dataspatialdataRSpatialExperimentSpatialExperimentIOSpatialFeatureExperimentspatialHeatmapSpatialOmicsOverlaySplicingGraphsStructstringssurfaltrTileDBArrayTreeAndLeaftreeioTreeSummarizedExperimentTSSrTVTBUlarcircupdateObjectVariantExperimentVCFArrayVennDetailweitrixXVectorZarrArrayzellkonverter
GUI (70)
affylmGUIAnnotationHubbettrbioCancerBiocPkgDashcanceRcarnationcbpManagerCoSIACRISPRballcrisprShinyCytoPipelineGUIDiscoRhythmepivizrepivizrChartepivizrStandaloneExperimentHubExperimentHubDataflowcatchRflowPloidyGA4GHshinyGeDiGEMGeneTonicgeyserGmicRGNOSISgoateaGSCAidealiSEEiSEEfieriSEEidiSEEpathwaysiSEEtreeiSEEuIsoCorrectoRGUIlevilimmaGUIMACSQuantifyRMatrixQCvisMethylAidmiaDashMSstatsQCguiMSstatsShinyomicplotROMICsPCAomXplorepcaExplorerphantasusplotGrouperpRolocGUIProstarpsichomicsQFeaturesGUIRedeRrTRMuisangeranalyseRSC3scanMiRAppscTreeVizshinybiocloadersingleCellTKSmartPhosSpliceWizSVMDOTSCANTVTBuSORTwpm
GPU (1)
ShinyApps (52)
BatchQCbettrBiocHubsShinyBiocMaintainerAppcarnationcellNexusChromSCapeclevRvisCRISPRballCySACytoPipelineGUIExploreModelMatrixexploreSEflowcatchRgDRgDRcoreGeDiGeneTonicGExPipegeyserGNOSISgoateaGSEAlensidealigvShinyimageTCGAiSEEiSEEfieriSEEhubiSEEidiSEEpathwaysiSEEtreeLIPIDIFyMatrixQCvisMetCircmiaDashMSstatsShinyomXplorepcaExplorerQFeaturesGUIrawDiagreglScatterplotRRFLOMICSscafariscanMiRAppscRNAseqAppshiny.goslingshinyDSPSmartPhossquallmssystemPipeShinyTSAR
AnnotationData (926)
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UCSC.ce11.ensGeneTxDb.Celegans.UCSC.ce11.refGeneTxDb.Celegans.UCSC.ce6.ensGeneTxDb.Cfamiliaris.UCSC.canFam3.refGeneTxDb.Cfamiliaris.UCSC.canFam4.refGeneTxDb.Cfamiliaris.UCSC.canFam5.refGeneTxDb.Cfamiliaris.UCSC.canFam6.refGeneTxDb.Dmelanogaster.UCSC.dm3.ensGeneTxDb.Dmelanogaster.UCSC.dm6.ensGeneTxDb.Drerio.UCSC.danRer10.refGeneTxDb.Drerio.UCSC.danRer11.refGeneTxDb.Ggallus.UCSC.galGal4.refGeneTxDb.Ggallus.UCSC.galGal5.refGeneTxDb.Ggallus.UCSC.galGal6.refGeneTxDb.Hsapiens.BioMart.igisTxDb.Hsapiens.UCSC.hg18.knownGeneTxDb.Hsapiens.UCSC.hg19.knownGeneTxDb.Hsapiens.UCSC.hg19.lincRNAsTranscriptsTxDb.Hsapiens.UCSC.hg19.refGeneTxDb.Hsapiens.UCSC.hg38.knownGeneTxDb.Hsapiens.UCSC.hg38.refGeneTxDb.Mmulatta.UCSC.rheMac10.refGeneTxDb.Mmulatta.UCSC.rheMac3.refGeneTxDb.Mmulatta.UCSC.rheMac8.refGeneTxDb.Mmusculus.UCSC.mm10.ensGeneTxDb.Mmusculus.UCSC.mm10.knownGeneTxDb.Mmusculus.UCSC.mm39.knownGeneTxDb.Mmusculus.UCSC.mm39.refGeneTxDb.Mmusculus.UCSC.mm9.knownGeneTxDb.Osativa.MSU.RGAP7TxDb.Ptroglodytes.UCSC.panTro4.refGeneTxDb.Ptroglodytes.UCSC.panTro5.refGeneTxDb.Ptroglodytes.UCSC.panTro6.refGeneTxDb.Rnorvegicus.BioMart.igisTxDb.Rnorvegicus.UCSC.rn4.ensGeneTxDb.Rnorvegicus.UCSC.rn5.refGeneTxDb.Rnorvegicus.UCSC.rn6.ncbiRefSeqTxDb.Rnorvegicus.UCSC.rn6.refGeneTxDb.Rnorvegicus.UCSC.rn7.refGeneTxDb.Scerevisiae.UCSC.sacCer2.sgdGeneTxDb.Scerevisiae.UCSC.sacCer3.sgdGeneTxDb.Sscrofa.UCSC.susScr11.refGeneTxDb.Sscrofa.UCSC.susScr3.refGeneu133aaofav2cdfu133x3p.dbu133x3pcdfu133x3pprobeUCSCRepeatMaskerUniProtKeywordsvitisviniferacdfvitisviniferaprobewheatcdfwheatprobeworm.db0xenopus.db0xenopuslaeviscdfxenopuslaevisprobexlaevis.dbxlaevis2cdfxlaevis2probeXtraSNPlocs.Hsapiens.dbSNP144.GRCh37XtraSNPlocs.Hsapiens.dbSNP144.GRCh38xtropicaliscdfxtropicalisprobeye6100subacdfye6100subbcdfye6100subccdfye6100subdcdfyeast.db0yeast2.dbyeast2cdfyeast2probeygs98.dbygs98cdfygs98frmavecsygs98probezebrafish.dbzebrafish.db0zebrafishcdfzebrafishprobe
Organism (666)
AlphaMissense.v2023.hg19AlphaMissense.v2023.hg38BioMartGOGeneSetscadd.v1.6.hg19cadd.v1.6.hg38EpiTxDb.Hs.hg38EpiTxDb.Mm.mm10EpiTxDb.Sc.sacCer3geneslatorGeneSummaryGenomeInfoDbDataphastCons35way.UCSC.mm39phyloP35way.UCSC.mm39TxDb.Athaliana.BioMart.plantsmart51UniProtKeywords
Anopheles_gambiae (4)
Apis_mellifera (4)
Arabidopsis_lyrata
Arabidopsis_thaliana (16)
ag.dbagcdfagprobearabidopsis.db0ath1121501.dbath1121501cdfath1121501frmavecsath1121501probeBSgenome.Athaliana.TAIR.04232008BSgenome.Athaliana.TAIR.TAIR9geneslatororg.At.tair.dbTxDb.Athaliana.BioMart.plantsmart22TxDb.Athaliana.BioMart.plantsmart25TxDb.Athaliana.BioMart.plantsmart28TxDb.Athaliana.BioMart.plantsmart51
Asparagus_officinalis (1)
Bacillus_subtilis (2)
Bos_taurus (16)
bovine.dbbovine.db0bovinecdfbovineprobeBSgenome.Btaurus.UCSC.bosTau3BSgenome.Btaurus.UCSC.bosTau3.maskedBSgenome.Btaurus.UCSC.bosTau4BSgenome.Btaurus.UCSC.bosTau4.maskedBSgenome.Btaurus.UCSC.bosTau6BSgenome.Btaurus.UCSC.bosTau6.maskedBSgenome.Btaurus.UCSC.bosTau8BSgenome.Btaurus.UCSC.bosTau9BSgenome.Btaurus.UCSC.bosTau9.maskedorg.Bt.eg.dbTxDb.Btaurus.UCSC.bosTau8.refGeneTxDb.Btaurus.UCSC.bosTau9.refGene
Caenorhabditis_elegans (13)
Callithrix_jacchus (2)
Canis_familiaris (16)
BSgenome.Cfamiliaris.UCSC.canFam2BSgenome.Cfamiliaris.UCSC.canFam2.maskedBSgenome.Cfamiliaris.UCSC.canFam3BSgenome.Cfamiliaris.UCSC.canFam3.maskedcanine.dbcanine.db0canine2.dbcanine2cdfcanine2probecaninecdfcanineprobeorg.Cf.eg.dbTxDb.Cfamiliaris.UCSC.canFam3.refGeneTxDb.Cfamiliaris.UCSC.canFam4.refGeneTxDb.Cfamiliaris.UCSC.canFam5.refGeneTxDb.Cfamiliaris.UCSC.canFam6.refGene
Cicer_arietinum (1)
Ciona_intestinalis
Chlamydomonas_reinhardtii (1)
Danio_rerio (16)
BSgenome.Drerio.UCSC.danRer10BSgenome.Drerio.UCSC.danRer11BSgenome.Drerio.UCSC.danRer5BSgenome.Drerio.UCSC.danRer5.maskedBSgenome.Drerio.UCSC.danRer6BSgenome.Drerio.UCSC.danRer6.maskedBSgenome.Drerio.UCSC.danRer7BSgenome.Drerio.UCSC.danRer7.maskedgeneslatororg.Dr.eg.dbTxDb.Drerio.UCSC.danRer10.refGeneTxDb.Drerio.UCSC.danRer11.refGenezebrafish.dbzebrafish.db0zebrafishcdfzebrafishprobe
Drosophila_melanogaster (18)
BSgenome.Dmelanogaster.UCSC.dm2BSgenome.Dmelanogaster.UCSC.dm2.maskedBSgenome.Dmelanogaster.UCSC.dm3BSgenome.Dmelanogaster.UCSC.dm3.maskedBSgenome.Dmelanogaster.UCSC.dm6drosgenome1.dbdrosgenome1cdfdrosgenome1probedrosophila2.dbdrosophila2cdfdrosophila2probefly.db0geneslatorindac.dborg.Dm.eg.dbrGenomeTracksDataTxDb.Dmelanogaster.UCSC.dm3.ensGeneTxDb.Dmelanogaster.UCSC.dm6.ensGene
Drosophila_virilis (1)
Eremothecium_gossypii
Escherichia_coli (12)
Gallus_gallus (14)
BSgenome.Ggallus.UCSC.galGal3BSgenome.Ggallus.UCSC.galGal3.maskedBSgenome.Ggallus.UCSC.galGal4BSgenome.Ggallus.UCSC.galGal4.maskedBSgenome.Ggallus.UCSC.galGal5BSgenome.Ggallus.UCSC.galGal6chicken.dbchicken.db0chickencdfchickenprobeorg.Gg.eg.dbTxDb.Ggallus.UCSC.galGal4.refGeneTxDb.Ggallus.UCSC.galGal5.refGeneTxDb.Ggallus.UCSC.galGal6.refGene
Gasterosteus_aculeatus (2)
Glycine_max (1)
Homo_sapiens (254)
AlphaMissense.v2023.hg19AlphaMissense.v2023.hg38BSgenome.Hsapiens.1000genomes.hs37d5BSgenome.Hsapiens.NCBI.GRCh38BSgenome.Hsapiens.NCBI.T2T.CHM13v2.0BSgenome.Hsapiens.UCSC.hg17BSgenome.Hsapiens.UCSC.hg17.maskedBSgenome.Hsapiens.UCSC.hg18BSgenome.Hsapiens.UCSC.hg18.maskedBSgenome.Hsapiens.UCSC.hg19BSgenome.Hsapiens.UCSC.hg19.maskedBSgenome.Hsapiens.UCSC.hg38BSgenome.Hsapiens.UCSC.hg38.dbSNP151.majorBSgenome.Hsapiens.UCSC.hg38.dbSNP151.minorBSgenome.Hsapiens.UCSC.hg38.maskedBSgenome.Hsapiens.UCSC.hs1cadd.v1.6.hg19cadd.v1.6.hg38chromhmmDataclariomdhumanprobeset.dbclariomdhumantranscriptcluster.dbclariomshumanhttranscriptcluster.dbclariomshumantranscriptcluster.dbcyp450cdfENCODExplorerDataEnsDb.Hsapiens.v75EnsDb.Hsapiens.v79EnsDb.Hsapiens.v86EPICv2manifestEpiTxDb.Hs.hg38FDb.FANTOM4.promoters.hg19FDb.InfiniumMethylation.hg18FDb.InfiniumMethylation.hg19FDb.UCSC.snp135common.hg19FDb.UCSC.snp137common.hg19FDb.UCSC.tRNAsfitCons.UCSC.hg19geneslatorGeneSummaryGenomicStateGGHumanMethCancerPanelv1.dbgp53cdfh10kcod.dbh20kcod.dbhcg110.dbhcg110cdfhcg110probehgfocus.dbhgfocuscdfhgfocusprobehgu133a.dbhgu133a2.dbhgu133a2cdfhgu133a2frmavecshgu133a2probehgu133acdfhgu133afrmavecshgu133aprobehgu133atagcdfhgu133atagprobehgu133b.dbhgu133bcdfhgu133bprobehgu133plus2.dbhgu133plus2cdfhgu133plus2frmavecshgu133plus2probehgu219.dbhgu219cdfhgu219probehgu95a.dbhgu95acdfhgu95aprobehgu95av2hgu95av2.dbhgu95av2cdfhgu95av2probehgu95b.dbhgu95bcdfhgu95bprobehgu95c.dbhgu95ccdfhgu95cprobehgu95d.dbhgu95dcdfhgu95dprobehgu95e.dbhgu95ecdfhgu95eprobehguatlas13k.dbhgubeta7.dbhguDKFZ31.dbhgug4100a.dbhgug4101a.dbhgug4110b.dbhgug4111a.dbhgug4112a.dbhgug4845a.dbhguqiagenv3.dbhi16cod.dbhivprtplus2cdfHomo.sapienshs25kresogen.dbHs6UG171.dbHsAgilentDesign026652.dbHspechspeccdfhta20probeset.dbhta20transcriptcluster.dbhthgu133a.dbhthgu133acdfhthgu133afrmavecshthgu133aprobehthgu133b.dbhthgu133bcdfhthgu133bprobehthgu133plusa.dbhthgu133plusb.dbhthgu133pluspm.dbhthgu133pluspmcdfhthgu133pluspmprobehu35ksuba.dbhu35ksubacdfhu35ksubaprobehu35ksubb.dbhu35ksubbcdfhu35ksubbprobehu35ksubc.dbhu35ksubccdfhu35ksubcprobehu35ksubd.dbhu35ksubdcdfhu35ksubdprobehu6800.dbhu6800cdfhu6800probehu6800subacdfhu6800subbcdfhu6800subccdfhu6800subdcdfhuex.1.0.st.v2frmavecshuex10stprobeset.dbhuex10sttranscriptcluster.dbHuExExonProbesetLocationHuExExonProbesetLocationHg18HuExExonProbesetLocationHg19hugene.1.0.st.v1frmavecshugene10stprobeset.dbhugene10sttranscriptcluster.dbhugene10stv1cdfhugene10stv1probehugene11stprobeset.dbhugene11sttranscriptcluster.dbhugene20stprobeset.dbhugene20sttranscriptcluster.dbhugene21stprobeset.dbhugene21sttranscriptcluster.dbhuman.db0HuO22.dbhwgcod.dbIlluminaHumanMethylation27k.dbIlluminaHumanMethylation27kanno.ilmn12.hg19IlluminaHumanMethylation27kmanifestIlluminaHumanMethylation450kanno.ilmn12.hg19IlluminaHumanMethylation450kmanifestIlluminaHumanMethylation450kprobeIlluminaHumanMethylationEPICanno.ilm10b2.hg19IlluminaHumanMethylationEPICanno.ilm10b3.hg19IlluminaHumanMethylationEPICanno.ilm10b4.hg19IlluminaHumanMethylationEPICmanifestIlluminaHumanMethylationEPICv2anno.20a1.hg38IlluminaHumanMethylationEPICv2manifestIlluminaHumanMethylationMSAanno.ilm10a1.hg38IlluminaHumanMethylationMSAmanifestilluminaHumanv1.dbilluminaHumanv2.dbilluminaHumanv2BeadID.dbilluminaHumanv3.dbilluminaHumanv4.dbilluminaHumanWGDASLv3.dbilluminaHumanWGDASLv4.dbJazaeriMetaData.dbLAPOINTE.dblumiHumanAll.dbMafDb.1Kgenomes.phase1.GRCh38MafDb.1Kgenomes.phase1.hs37d5MafDb.1Kgenomes.phase3.GRCh38MafDb.1Kgenomes.phase3.hs37d5MafDb.ExAC.r1.0.GRCh38MafDb.ExAC.r1.0.hs37d5MafDb.ExAC.r1.0.nonTCGA.GRCh38MafDb.ExAC.r1.0.nonTCGA.hs37d5MafDb.gnomAD.r2.1.GRCh38MafDb.gnomAD.r2.1.hs37d5MafDb.gnomADex.r2.1.GRCh38MafDb.gnomADex.r2.1.hs37d5MafDb.TOPMed.freeze5.hg19MafDb.TOPMed.freeze5.hg38MafH5.gnomAD.v4.0.GRCh38mirna102xgaincdfmirna10cdfmirna10probemirna20cdfmogene.1.0.st.v1frmavecsNorway981.dbnugohs1a520180.dbnugohs1a520180cdfnugohs1a520180probeOperonHumanV3.dborg.Hs.eg.dbPartheenMetaData.dbpedbarrayv10.dbpedbarrayv9.dbphastCons100way.UCSC.hg19phastCons100way.UCSC.hg38phastCons30way.UCSC.hg38phastCons7way.UCSC.hg38POCRCannotation.dbPolyPhen.Hsapiens.dbSNP131primeviewcdfprimeviewprobeRmiR.Hs.miRNARmiR.hsaRoberts2005Annotation.dbscAnnotatR.modelsSHDZ.dbSIFT.Hsapiens.dbSNP132SIFT.Hsapiens.dbSNP137SNPlocs.Hsapiens.dbSNP144.GRCh37SNPlocs.Hsapiens.dbSNP144.GRCh38SNPlocs.Hsapiens.dbSNP149.GRCh38SNPlocs.Hsapiens.dbSNP150.GRCh38SNPlocs.Hsapiens.dbSNP155.GRCh37SNPlocs.Hsapiens.dbSNP155.GRCh38SomaScan.dbTENET.AnnotationHubtest1cdftest2cdftest3cdftest3probeTxDb.Hsapiens.BioMart.igisTxDb.Hsapiens.UCSC.hg18.knownGeneTxDb.Hsapiens.UCSC.hg19.knownGeneTxDb.Hsapiens.UCSC.hg19.lincRNAsTranscriptsTxDb.Hsapiens.UCSC.hg19.refGeneTxDb.Hsapiens.UCSC.hg38.knownGeneTxDb.Hsapiens.UCSC.hg38.refGeneu133aaofav2cdfu133x3p.dbu133x3pcdfu133x3pprobeUniProtKeywordsXtraSNPlocs.Hsapiens.dbSNP144.GRCh37XtraSNPlocs.Hsapiens.dbSNP144.GRCh38
Hordeum_vulgare (2)
Kluyveromyces_lactis
Macaca_fascicularis (2)
Macaca_mulatta (12)
BSgenome.Mmulatta.UCSC.rheMac10BSgenome.Mmulatta.UCSC.rheMac2BSgenome.Mmulatta.UCSC.rheMac2.maskedBSgenome.Mmulatta.UCSC.rheMac3BSgenome.Mmulatta.UCSC.rheMac3.maskedBSgenome.Mmulatta.UCSC.rheMac8org.Mmu.eg.dbrhesuscdfrhesusprobeTxDb.Mmulatta.UCSC.rheMac10.refGeneTxDb.Mmulatta.UCSC.rheMac3.refGeneTxDb.Mmulatta.UCSC.rheMac8.refGene
Magnaporthe_grisea
Medicago_truncatula
Monodelphis_domestica (1)
Mus_musculus (117)
BSgenome.Mmusculus.UCSC.mm10BSgenome.Mmusculus.UCSC.mm10.maskedBSgenome.Mmusculus.UCSC.mm39BSgenome.Mmusculus.UCSC.mm8BSgenome.Mmusculus.UCSC.mm8.maskedBSgenome.Mmusculus.UCSC.mm9BSgenome.Mmusculus.UCSC.mm9.maskedchromhmmDataclariomsmousehttranscriptcluster.dbclariomsmousetranscriptcluster.dbENCODExplorerDataEnsDb.Mmusculus.v75EnsDb.Mmusculus.v79EpiTxDb.Mm.mm10geneslatorhtmg430a.dbhtmg430acdfhtmg430aprobehtmg430b.dbhtmg430bcdfhtmg430bprobehtmg430pm.dbhtmg430pmcdfhtmg430pmprobeilluminaMousev1.dbilluminaMousev1p1.dbilluminaMousev2.dblumiMouseAll.dbm10kcod.dbm20kcod.dbmgu74a.dbmgu74acdfmgu74aprobemgu74av2.dbmgu74av2cdfmgu74av2probemgu74b.dbmgu74bcdfmgu74bprobemgu74bv2.dbmgu74bv2cdfmgu74bv2probemgu74c.dbmgu74ccdfmgu74cprobemgu74cv2.dbmgu74cv2cdfmgu74cv2probemguatlas5k.dbmgug4104a.dbmgug4120a.dbmgug4121a.dbmgug4122a.dbmi16cod.dbmm24kresogen.dbMmAgilentDesign026655.dbmoe430a.dbmoe430acdfmoe430aprobemoe430b.dbmoe430bcdfmoe430bprobemoex10stprobeset.dbmoex10sttranscriptcluster.dbmogene10stprobeset.dbmogene10sttranscriptcluster.dbmogene10stv1cdfmogene10stv1probemogene11stprobeset.dbmogene11sttranscriptcluster.dbmogene20stprobeset.dbmogene20sttranscriptcluster.dbmogene21stprobeset.dbmogene21sttranscriptcluster.dbmouse.db0mouse4302.dbmouse4302cdfmouse4302frmavecsmouse4302probemouse430a2.dbmouse430a2cdfmouse430a2frmavecsmouse430a2probempedbarray.dbmta10probeset.dbmta10transcriptcluster.dbmu11ksuba.dbmu11ksubacdfmu11ksubaprobemu11ksubb.dbmu11ksubbcdfmu11ksubbprobeMu15v1.dbmu19ksuba.dbmu19ksubacdfmu19ksubb.dbmu19ksubbcdfmu19ksubc.dbmu19ksubccdfMu22v3.dbmu6500subacdfmu6500subbcdfmu6500subccdfmu6500subdcdfMus.musculusmwgcod.dbnugomm1a520177.dbnugomm1a520177cdfnugomm1a520177probeorg.Mm.eg.dbphastCons35way.UCSC.mm39phyloP35way.UCSC.mm39TxDb.Mmusculus.UCSC.mm10.ensGeneTxDb.Mmusculus.UCSC.mm10.knownGeneTxDb.Mmusculus.UCSC.mm39.knownGeneTxDb.Mmusculus.UCSC.mm39.refGeneTxDb.Mmusculus.UCSC.mm9.knownGene
Neurospora_crassa
Oncorhynchus_mykiss
Oryza_sativa (2)
Pan_paniscus (2)
Pan_troglodytes (11)
BSgenome.Ptroglodytes.UCSC.panTro2BSgenome.Ptroglodytes.UCSC.panTro2.maskedBSgenome.Ptroglodytes.UCSC.panTro3BSgenome.Ptroglodytes.UCSC.panTro3.maskedBSgenome.Ptroglodytes.UCSC.panTro5BSgenome.Ptroglodytes.UCSC.panTro6chimp.db0org.Pt.eg.dbTxDb.Ptroglodytes.UCSC.panTro4.refGeneTxDb.Ptroglodytes.UCSC.panTro5.refGeneTxDb.Ptroglodytes.UCSC.panTro6.refGene
Plasmodium_falciparum (4)
Pseudomonas_aeruginosa (2)
Rattus_norvegicus (78)
adme16cod.dbBSgenome.Rnorvegicus.UCSC.rn4BSgenome.Rnorvegicus.UCSC.rn4.maskedBSgenome.Rnorvegicus.UCSC.rn5BSgenome.Rnorvegicus.UCSC.rn5.maskedBSgenome.Rnorvegicus.UCSC.rn6BSgenome.Rnorvegicus.UCSC.rn7clariomsrathttranscriptcluster.dbclariomsrattranscriptcluster.dbEnsDb.Rnorvegicus.v75EnsDb.Rnorvegicus.v79geneslatorhtrat230pm.dbhtrat230pmcdfhtrat230pmprobehtratfocus.dbhtratfocuscdfhtratfocusprobeilluminaRatv1.dblumiRatAll.dborg.Rn.eg.dbr10kcod.dbrae230a.dbrae230acdfrae230aproberae230b.dbrae230bcdfrae230bproberaex10stprobeset.dbraex10sttranscriptcluster.dbragene10stprobeset.dbragene10sttranscriptcluster.dbragene10stv1cdfragene10stv1proberagene11stprobeset.dbragene11sttranscriptcluster.dbragene20stprobeset.dbragene20sttranscriptcluster.dbragene21stprobeset.dbragene21sttranscriptcluster.dbrat.db0rat2302.dbrat2302cdfrat2302frmavecsrat2302proberattoxfxcdfrattoxfxprobeRattus.norvegicusrgu34a.dbrgu34acdfrgu34aprobergu34b.dbrgu34bcdfrgu34bprobergu34c.dbrgu34ccdfrgu34cproberguatlas4k.dbrgug4105a.dbrgug4130a.dbrgug4131a.dbri16cod.dbRnAgilentDesign028282.dbrnu34.dbrnu34cdfrnu34proberta10probeset.dbrta10transcriptcluster.dbrtu34.dbrtu34cdfrtu34proberwgcod.dbTxDb.Rnorvegicus.BioMart.igisTxDb.Rnorvegicus.UCSC.rn4.ensGeneTxDb.Rnorvegicus.UCSC.rn5.refGeneTxDb.Rnorvegicus.UCSC.rn6.ncbiRefSeqTxDb.Rnorvegicus.UCSC.rn6.refGeneTxDb.Rnorvegicus.UCSC.rn7.refGene
Saccharomyces_cerevisiae (19)
BSgenome.Scerevisiae.UCSC.sacCer1BSgenome.Scerevisiae.UCSC.sacCer2BSgenome.Scerevisiae.UCSC.sacCer3EpiTxDb.Sc.sacCer3geneslatororg.Sc.sgd.dbTxDb.Scerevisiae.UCSC.sacCer2.sgdGeneTxDb.Scerevisiae.UCSC.sacCer3.sgdGeneye6100subacdfye6100subbcdfye6100subccdfye6100subdcdfyeast.db0yeast2.dbyeast2cdfyeast2probeygs98.dbygs98cdfygs98probe
Saccharum_officinarum (2)
Salmo_salar
Schizosaccharomyces_pombe
Staphylococcus_aureus (2)
Sus_scrofa (10)
Taeniopygia_guttata (3)
Toxoplasma_gondii (1)
Triticum_aestivum
Vitis_vinifera (5)
Xenopus_laevis (3)
Xenopus_tropicalis (1)
Zea_mays (2)
ChipManufacturer (402)
adme16cod.dbag.dbagcdfagprobeath1121501.dbath1121501cdfath1121501frmavecsath1121501probebarley1cdfbarley1probebovine.dbbovinecdfbovineprobebsubtiliscdfbsubtilisprobecanine.dbcanine2.dbcanine2cdfcanine2probecaninecdfcanineprobecelegans.dbceleganscdfcelegansprobechicken.dbchickencdfchickenprobecitruscdfcitrusprobeclariomdhumanprobeset.dbclariomdhumantranscriptcluster.dbclariomshumanhttranscriptcluster.dbclariomshumantranscriptcluster.dbclariomsmousehttranscriptcluster.dbclariomsmousetranscriptcluster.dbclariomsrathttranscriptcluster.dbclariomsrattranscriptcluster.dbcottoncdfcottonprobecyp450cdfdrosgenome1.dbdrosgenome1cdfdrosgenome1probedrosophila2.dbdrosophila2cdfdrosophila2probeecoli2.dbecoli2cdfecoli2probeecoliasv2cdfecoliasv2probeecolicdfecoliprobeEPICv2manifestGGHumanMethCancerPanelv1.dbgp53cdfh10kcod.dbh20kcod.dbhcg110.dbhcg110cdfhcg110probehgfocus.dbhgfocuscdfhgfocusprobehgu133a.dbhgu133a2.dbhgu133a2cdfhgu133a2frmavecshgu133a2probehgu133acdfhgu133afrmavecshgu133aprobehgu133atagcdfhgu133atagprobehgu133b.dbhgu133bcdfhgu133bprobehgu133plus2.dbhgu133plus2cdfhgu133plus2frmavecshgu133plus2probehgu219.dbhgu219cdfhgu219probehgu95a.dbhgu95acdfhgu95aprobehgu95av2hgu95av2.dbhgu95av2cdfhgu95av2probehgu95b.dbhgu95bcdfhgu95bprobehgu95c.dbhgu95ccdfhgu95cprobehgu95d.dbhgu95dcdfhgu95dprobehgu95e.dbhgu95ecdfhgu95eprobehgug4100a.dbhgug4101a.dbhgug4110b.dbhgug4111a.dbhgug4112a.dbhguqiagenv3.dbhi16cod.dbhivprtplus2cdfhs25kresogen.dbHsAgilentDesign026652.dbHspechspeccdfhta20probeset.dbhta20transcriptcluster.dbhthgu133a.dbhthgu133acdfhthgu133afrmavecshthgu133aprobehthgu133b.dbhthgu133bcdfhthgu133bprobehthgu133plusa.dbhthgu133plusb.dbhthgu133pluspm.dbhthgu133pluspmcdfhthgu133pluspmprobehtmg430a.dbhtmg430acdfhtmg430aprobehtmg430b.dbhtmg430bcdfhtmg430bprobehtmg430pm.dbhtmg430pmcdfhtmg430pmprobehtrat230pm.dbhtrat230pmcdfhtrat230pmprobehtratfocus.dbhtratfocuscdfhtratfocusprobehu35ksuba.dbhu35ksubacdfhu35ksubaprobehu35ksubb.dbhu35ksubbcdfhu35ksubbprobehu35ksubc.dbhu35ksubccdfhu35ksubcprobehu35ksubd.dbhu35ksubdcdfhu35ksubdprobehu6800.dbhu6800cdfhu6800probehu6800subacdfhu6800subbcdfhu6800subccdfhu6800subdcdfhuex.1.0.st.v2frmavecshuex10stprobeset.dbhuex10sttranscriptcluster.dbHuExExonProbesetLocationHuExExonProbesetLocationHg18HuExExonProbesetLocationHg19hugene.1.0.st.v1frmavecshugene10stprobeset.dbhugene10sttranscriptcluster.dbhugene10stv1cdfhugene10stv1probehugene11stprobeset.dbhugene11sttranscriptcluster.dbhugene20stprobeset.dbhugene20sttranscriptcluster.dbhugene21stprobeset.dbhugene21sttranscriptcluster.dbhwgcod.dbIlluminaHumanMethylation27k.dbIlluminaHumanMethylation27kanno.ilmn12.hg19IlluminaHumanMethylation27kmanifestIlluminaHumanMethylation450kanno.ilmn12.hg19IlluminaHumanMethylation450kmanifestIlluminaHumanMethylationEPICanno.ilm10b2.hg19IlluminaHumanMethylationEPICanno.ilm10b3.hg19IlluminaHumanMethylationEPICanno.ilm10b4.hg19IlluminaHumanMethylationEPICmanifestIlluminaHumanMethylationEPICv2anno.20a1.hg38IlluminaHumanMethylationEPICv2manifestIlluminaHumanMethylationMSAanno.ilm10a1.hg38IlluminaHumanMethylationMSAmanifestilluminaHumanv1.dbilluminaHumanv2.dbilluminaHumanv2BeadID.dbilluminaHumanv3.dbilluminaHumanv4.dbilluminaHumanWGDASLv3.dbilluminaHumanWGDASLv4.dbilluminaMousev1.dbilluminaMousev1p1.dbilluminaMousev2.dbilluminaRatv1.dbindac.dblumiHumanAll.dblumiMouseAll.dblumiRatAll.dbm10kcod.dbm20kcod.dbmaizecdfmaizeprobemedicagocdfmedicagoprobemgu74a.dbmgu74acdfmgu74aprobemgu74av2.dbmgu74av2cdfmgu74av2probemgu74b.dbmgu74bcdfmgu74bprobemgu74bv2.dbmgu74bv2cdfmgu74bv2probemgu74c.dbmgu74ccdfmgu74cprobemgu74cv2.dbmgu74cv2cdfmgu74cv2probemgug4104a.dbmgug4120a.dbmgug4121a.dbmgug4122a.dbmi16cod.dbmirna102xgaincdfmirna10cdfmirna10probemirna20cdfmm24kresogen.dbMmAgilentDesign026655.dbmoe430a.dbmoe430acdfmoe430aprobemoe430b.dbmoe430bcdfmoe430bprobemoex10stprobeset.dbmoex10sttranscriptcluster.dbMoExExonProbesetLocationmogene.1.0.st.v1frmavecsmogene10stprobeset.dbmogene10sttranscriptcluster.dbmogene10stv1cdfmogene10stv1probemogene11stprobeset.dbmogene11sttranscriptcluster.dbmogene20stprobeset.dbmogene20sttranscriptcluster.dbmogene21stprobeset.dbmogene21sttranscriptcluster.dbmouse4302.dbmouse4302cdfmouse4302frmavecsmouse4302probemouse430a2.dbmouse430a2cdfmouse430a2frmavecsmouse430a2probemta10probeset.dbmta10transcriptcluster.dbmu11ksuba.dbmu11ksubacdfmu11ksubaprobemu11ksubb.dbmu11ksubbcdfmu11ksubbprobemu19ksuba.dbmu19ksubacdfmu19ksubb.dbmu19ksubbcdfmu19ksubc.dbmu19ksubccdfmu6500subacdfmu6500subbcdfmu6500subccdfmu6500subdcdfmwgcod.dbnugohs1a520180.dbnugohs1a520180cdfnugohs1a520180probenugomm1a520177.dbnugomm1a520177cdfnugomm1a520177probepaeg1acdfpaeg1aprobeplasmodiumanophelescdfplasmodiumanophelesprobepoplarcdfpoplarprobeporcine.dbporcinecdfporcineprobeprimeviewcdfprimeviewprober10kcod.dbrae230a.dbrae230acdfrae230aproberae230b.dbrae230bcdfrae230bproberaex10stprobeset.dbraex10sttranscriptcluster.dbRaExExonProbesetLocationragene10stprobeset.dbragene10sttranscriptcluster.dbragene10stv1cdfragene10stv1proberagene11stprobeset.dbragene11sttranscriptcluster.dbragene20stprobeset.dbragene20sttranscriptcluster.dbragene21stprobeset.dbragene21sttranscriptcluster.dbrat2302.dbrat2302cdfrat2302frmavecsrat2302proberattoxfxcdfrattoxfxprobergu34a.dbrgu34acdfrgu34aprobergu34b.dbrgu34bcdfrgu34bprobergu34c.dbrgu34ccdfrgu34cprobergug4105a.dbrgug4130a.dbrgug4131a.dbrhesuscdfrhesusproberi16cod.dbricecdfriceprobeRnAgilentDesign028282.dbrnu34.dbrnu34cdfrnu34proberta10probeset.dbrta10transcriptcluster.dbrtu34.dbrtu34cdfrtu34proberwgcod.dbsaureuscdfsaureusprobesoybeancdfsoybeanprobesugarcanecdfsugarcaneprobetest1cdftest2cdftest3cdftest3probetomatocdftomatoprobeu133aaofav2cdfu133x3p.dbu133x3pcdfu133x3pprobevitisviniferacdfvitisviniferaprobewheatcdfwheatprobexenopuslaeviscdfxenopuslaevisprobexlaevis.dbxlaevis2cdfxlaevis2probextropicaliscdfxtropicalisprobeye6100subacdfye6100subbcdfye6100subccdfye6100subdcdfyeast2.dbyeast2cdfyeast2probeygs98.dbygs98cdfygs98frmavecsygs98probezebrafish.dbzebrafishcdfzebrafishprobe
AffymetrixChip (342)
ag.dbagcdfagprobeath1121501.dbath1121501cdfath1121501frmavecsath1121501probebarley1cdfbarley1probebovine.dbbovinecdfbovineprobebsubtiliscdfbsubtilisprobecanine.dbcanine2.dbcanine2cdfcanine2probecaninecdfcanineprobecelegans.dbceleganscdfcelegansprobechicken.dbchickencdfchickenprobecitruscdfcitrusprobeclariomdhumanprobeset.dbclariomdhumantranscriptcluster.dbclariomshumanhttranscriptcluster.dbclariomshumantranscriptcluster.dbclariomsmousehttranscriptcluster.dbclariomsmousetranscriptcluster.dbclariomsrathttranscriptcluster.dbclariomsrattranscriptcluster.dbcottoncdfcottonprobecyp450cdfdrosgenome1.dbdrosgenome1cdfdrosgenome1probedrosophila2.dbdrosophila2cdfdrosophila2probeecoli2.dbecoli2cdfecoli2probeecoliasv2cdfecoliasv2probeecolicdfecoliprobegp53cdfhcg110.dbhcg110cdfhcg110probehgfocus.dbhgfocuscdfhgfocusprobehgu133a.dbhgu133a2.dbhgu133a2cdfhgu133a2frmavecshgu133a2probehgu133acdfhgu133afrmavecshgu133aprobehgu133atagcdfhgu133atagprobehgu133b.dbhgu133bcdfhgu133bprobehgu133plus2.dbhgu133plus2cdfhgu133plus2frmavecshgu133plus2probehgu219.dbhgu219cdfhgu219probehgu95a.dbhgu95acdfhgu95aprobehgu95av2hgu95av2.dbhgu95av2cdfhgu95av2probehgu95b.dbhgu95bcdfhgu95bprobehgu95c.dbhgu95ccdfhgu95cprobehgu95d.dbhgu95dcdfhgu95dprobehgu95e.dbhgu95ecdfhgu95eprobehivprtplus2cdfHspechspeccdfhta20probeset.dbhta20transcriptcluster.dbhthgu133a.dbhthgu133acdfhthgu133afrmavecshthgu133aprobehthgu133b.dbhthgu133bcdfhthgu133bprobehthgu133plusa.dbhthgu133plusb.dbhthgu133pluspm.dbhthgu133pluspmcdfhthgu133pluspmprobehtmg430a.dbhtmg430acdfhtmg430aprobehtmg430b.dbhtmg430bcdfhtmg430bprobehtmg430pm.dbhtmg430pmcdfhtmg430pmprobehtrat230pm.dbhtrat230pmcdfhtrat230pmprobehtratfocus.dbhtratfocuscdfhtratfocusprobehu35ksuba.dbhu35ksubacdfhu35ksubaprobehu35ksubb.dbhu35ksubbcdfhu35ksubbprobehu35ksubc.dbhu35ksubccdfhu35ksubcprobehu35ksubd.dbhu35ksubdcdfhu35ksubdprobehu6800.dbhu6800cdfhu6800probehu6800subacdfhu6800subbcdfhu6800subccdfhu6800subdcdfhuex.1.0.st.v2frmavecshuex10stprobeset.dbhuex10sttranscriptcluster.dbHuExExonProbesetLocationHuExExonProbesetLocationHg18HuExExonProbesetLocationHg19hugene.1.0.st.v1frmavecshugene10stprobeset.dbhugene10sttranscriptcluster.dbhugene10stv1cdfhugene10stv1probehugene11stprobeset.dbhugene11sttranscriptcluster.dbhugene20stprobeset.dbhugene20sttranscriptcluster.dbhugene21stprobeset.dbhugene21sttranscriptcluster.dbmaizecdfmaizeprobemedicagocdfmedicagoprobemgu74a.dbmgu74acdfmgu74aprobemgu74av2.dbmgu74av2cdfmgu74av2probemgu74b.dbmgu74bcdfmgu74bprobemgu74bv2.dbmgu74bv2cdfmgu74bv2probemgu74c.dbmgu74ccdfmgu74cprobemgu74cv2.dbmgu74cv2cdfmgu74cv2probemirna102xgaincdfmirna10cdfmirna10probemirna20cdfmoe430a.dbmoe430acdfmoe430aprobemoe430b.dbmoe430bcdfmoe430bprobemoex10stprobeset.dbmoex10sttranscriptcluster.dbMoExExonProbesetLocationmogene.1.0.st.v1frmavecsmogene10stprobeset.dbmogene10sttranscriptcluster.dbmogene10stv1cdfmogene10stv1probemogene11stprobeset.dbmogene11sttranscriptcluster.dbmogene20stprobeset.dbmogene20sttranscriptcluster.dbmogene21stprobeset.dbmogene21sttranscriptcluster.dbmouse4302.dbmouse4302cdfmouse4302frmavecsmouse4302probemouse430a2.dbmouse430a2cdfmouse430a2frmavecsmouse430a2probemta10probeset.dbmta10transcriptcluster.dbmu11ksuba.dbmu11ksubacdfmu11ksubaprobemu11ksubb.dbmu11ksubbcdfmu11ksubbprobemu19ksuba.dbmu19ksubacdfmu19ksubb.dbmu19ksubbcdfmu19ksubc.dbmu19ksubccdfmu6500subacdfmu6500subbcdfmu6500subccdfmu6500subdcdfnugohs1a520180.dbnugohs1a520180cdfnugohs1a520180probenugomm1a520177.dbnugomm1a520177cdfnugomm1a520177probepaeg1acdfpaeg1aprobeplasmodiumanophelescdfplasmodiumanophelesprobepoplarcdfpoplarprobeporcine.dbporcinecdfporcineprobeprimeviewcdfprimeviewproberae230a.dbrae230acdfrae230aproberae230b.dbrae230bcdfrae230bproberaex10stprobeset.dbraex10sttranscriptcluster.dbRaExExonProbesetLocationragene10stprobeset.dbragene10sttranscriptcluster.dbragene10stv1cdfragene10stv1proberagene11stprobeset.dbragene11sttranscriptcluster.dbragene20stprobeset.dbragene20sttranscriptcluster.dbragene21stprobeset.dbragene21sttranscriptcluster.dbrat2302.dbrat2302cdfrat2302frmavecsrat2302proberattoxfxcdfrattoxfxprobergu34a.dbrgu34acdfrgu34aprobergu34b.dbrgu34bcdfrgu34bprobergu34c.dbrgu34ccdfrgu34cproberhesuscdfrhesusprobericecdfriceprobernu34.dbrnu34cdfrnu34proberta10probeset.dbrta10transcriptcluster.dbrtu34.dbrtu34cdfrtu34probesaureuscdfsaureusprobesoybeancdfsoybeanprobesugarcanecdfsugarcaneprobetest1cdftest2cdftest3cdftest3probetomatocdftomatoprobeu133aaofav2cdfu133x3p.dbu133x3pcdfu133x3pprobevitisviniferacdfvitisviniferaprobewheatcdfwheatprobexenopuslaeviscdfxenopuslaevisprobexlaevis.dbxlaevis2cdfxlaevis2probextropicaliscdfxtropicalisprobeye6100subacdfye6100subbcdfye6100subccdfye6100subdcdfyeast2.dbyeast2cdfyeast2probeygs98.dbygs98cdfygs98frmavecsygs98probezebrafish.dbzebrafishcdfzebrafishprobe
AgilentChip (15)
ClonetechChip
GEChip
INDACChip (1)
IlluminaChip (29)
EPICv2manifestGGHumanMethCancerPanelv1.dbIlluminaHumanMethylation27k.dbIlluminaHumanMethylation27kanno.ilmn12.hg19IlluminaHumanMethylation27kmanifestIlluminaHumanMethylation450kanno.ilmn12.hg19IlluminaHumanMethylation450kmanifestIlluminaHumanMethylationEPICanno.ilm10b2.hg19IlluminaHumanMethylationEPICanno.ilm10b3.hg19IlluminaHumanMethylationEPICanno.ilm10b4.hg19IlluminaHumanMethylationEPICmanifestIlluminaHumanMethylationEPICv2anno.20a1.hg38IlluminaHumanMethylationEPICv2manifestIlluminaHumanMethylationMSAanno.ilm10a1.hg38IlluminaHumanMethylationMSAmanifestilluminaHumanv1.dbilluminaHumanv2.dbilluminaHumanv2BeadID.dbilluminaHumanv3.dbilluminaHumanv4.dbilluminaHumanWGDASLv3.dbilluminaHumanWGDASLv4.dbilluminaMousev1.dbilluminaMousev1p1.dbilluminaMousev2.dbilluminaRatv1.dblumiHumanAll.dblumiMouseAll.dblumiRatAll.db
QiagenChip (1)
RNG_MRCChip (2)
RocheChip
UniversityHealthNetwork
CustomCDF
GACustomCDF
MBNICustomCDF
CustomArray (2)
CustomDBSchema (9)
AHPathbankDbsAHWikipathwaysDbsChemmineDrugsENCODExplorerDatametaboliteIDmappingRmiR.Hs.miRNARmiR.hsasynaptome.datasynaptome.db
GeneCardsCustomSchema
FunctionalAnnotation (25)
SequenceAnnotation (5)
GenomicSequence (4)
ChipName (198)
adme16cod.dbag.dbagcdfagprobeath1121501.dbath1121501cdfath1121501frmavecsath1121501probecelegans.dbceleganscdfcelegansprobedrosgenome1.dbdrosgenome1cdfdrosgenome1probedrosophila2.dbdrosophila2cdfdrosophila2probegeneslatorh10kcod.dbh20kcod.dbhcg110.dbhcg110cdfhcg110probehgfocus.dbhgfocuscdfhgfocusprobehgu133a.dbhgu133a2.dbhgu133a2cdfhgu133a2frmavecshgu133a2probehgu133acdfhgu133afrmavecshgu133aprobehgu133b.dbhgu133bcdfhgu133bprobehgu133plus2.dbhgu133plus2cdfhgu133plus2frmavecshgu133plus2probehgu95a.dbhgu95acdfhgu95aprobehgu95av2hgu95av2.dbhgu95av2cdfhgu95av2probehgu95b.dbhgu95bcdfhgu95bprobehgu95c.dbhgu95ccdfhgu95cprobehgu95d.dbhgu95dcdfhgu95dprobehgu95e.dbhgu95ecdfhgu95eprobehguatlas13k.dbhgug4100a.dbhgug4101a.dbhgug4110b.dbhgug4111a.dbhgug4112a.dbhguqiagenv3.dbhi16cod.dbhs25kresogen.dbhu35ksuba.dbhu35ksubacdfhu35ksubaprobehu35ksubb.dbhu35ksubbcdfhu35ksubbprobehu35ksubc.dbhu35ksubccdfhu35ksubcprobehu35ksubd.dbhu35ksubdcdfhu35ksubdprobehu6800.dbhu6800cdfhu6800probeHuO22.dbhwgcod.dbilluminaHumanv1.dbilluminaHumanv2.dbilluminaMousev1.dbilluminaMousev1p1.dbilluminaRatv1.dbindac.dbm10kcod.dbm20kcod.dbmgu74a.dbmgu74acdfmgu74aprobemgu74av2.dbmgu74av2cdfmgu74av2probemgu74b.dbmgu74bcdfmgu74bprobemgu74bv2.dbmgu74bv2cdfmgu74bv2probemgu74c.dbmgu74ccdfmgu74cprobemgu74cv2.dbmgu74cv2cdfmgu74cv2probemguatlas5k.dbmgug4121a.dbmgug4122a.dbmi16cod.dbmm24kresogen.dbmoe430a.dbmoe430acdfmoe430aprobemoe430b.dbmoe430bcdfmoe430bprobemouse4302.dbmouse4302cdfmouse4302frmavecsmouse4302probemouse430a2.dbmouse430a2cdfmouse430a2frmavecsmouse430a2probempedbarray.dbmu11ksuba.dbmu11ksubacdfmu11ksubaprobemu11ksubb.dbmu11ksubbcdfmu11ksubbprobeMu15v1.dbmu19ksuba.dbmu19ksubacdfmu19ksubb.dbmu19ksubbcdfmu19ksubc.dbmu19ksubccdfMu22v3.dbmwgcod.dbNorway981.dbOperonHumanV3.dbPartheenMetaData.dbpedbarrayv10.dbpedbarrayv9.dbr10kcod.dbrae230a.dbrae230acdfrae230aproberae230b.dbrae230bcdfrae230bproberat2302.dbrat2302cdfrat2302frmavecsrat2302probergu34a.dbrgu34acdfrgu34aprobergu34b.dbrgu34bcdfrgu34bprobergu34c.dbrgu34ccdfrgu34cprobergug4130a.dbri16cod.dbrnu34.dbrnu34cdfrnu34probeRoberts2005Annotation.dbrtu34.dbrtu34cdfrtu34proberwgcod.dbSHDZ.dbu133x3p.dbu133x3pcdfu133x3pprobexenopuslaeviscdfxenopuslaevisprobeyeast2.dbyeast2cdfyeast2probeygs98.dbygs98cdfygs98frmavecsygs98probezebrafish.dbzebrafishcdfzebrafishprobe
adme16cod (1)
celegans (3)
drosgenome1 (3)
drosophila2 (3)
h10kcod (1)
h20kcod (1)
hcg110 (3)
hgfocus (3)
hgu133b (3)
hgu95a (3)
hgu95av2 (4)
hgu95b (3)
hgu95c (3)
hgu95d (3)
hgu95e (3)
hguatlas13k (1)
hgug4100a (1)
hgug4101a (1)
hgug4110b (1)
hgug4111a (1)
hgug4112a (1)
hguqiagenv3 (1)
hi16cod (1)
hs25kresogen (1)
hu35ksuba (3)
hu35ksubb (3)
hu35ksubc (3)
hu35ksubd (3)
hu6800 (3)
HuO22 (1)
hwgcod (1)
indac (1)
illuminaHumanv1 (1)
illuminaHumanv2 (1)
illuminaMousev1 (1)
illuminaMousev1p1 (1)
illuminaRatv1 (1)
JazaerimetaData
lumiHumanV1
lumiMouseV1
lumiHumanV2
lumiRatV1
m10kcod (1)
m20kcod (1)
mi16cod (1)
mm24kresogen (1)
mgu74a (3)
mgu74av2 (3)
mgu74b (3)
mgu74bv2 (3)
mgu74c (3)
mgu74cv2 (3)
mguatlas5k (1)
mgug4121a (1)
mgug4122a (1)
moe430a (3)
moe430b (3)
mpedbarray (1)
mu11ksuba (3)
mu11ksubb (3)
mu19ksuba (2)
mu19ksubb (2)
mu19ksubc (2)
Mu15v1 (1)
Mu22v3 (1)
mwgcod (1)
Norway981 (1)
OperonHumanV3 (1)
pedbarrayv9 (1)
pedbarrayv10 (1)
PartheenMetaData (1)
r10kcod (1)
rae230a (3)
rae230b (3)
rgu34a (3)
rgu34b (3)
rgu34c (3)
rgug4130a (1)
ri16cod (1)
rnu34 (3)
Roberts2005Annotation (1)
rtu34 (3)
rwgcod (1)
SHDZ (1)
u133x3p (3)
xenopuslaevis (2)
yeast2 (3)
zebrafish (4)
hcgi12k
hcgi8k
PackageType (655)
AlphaMissense.v2023.hg19AlphaMissense.v2023.hg38cadd.v1.6.hg19cadd.v1.6.hg38geneslatorphastCons35way.UCSC.mm39phyloP35way.UCSC.mm39rat2302frmavecs
BSgenome (111)
BSgenome.Amellifera.BeeBase.assembly4BSgenome.Amellifera.NCBI.AmelHAv3.1BSgenome.Amellifera.UCSC.apiMel2BSgenome.Amellifera.UCSC.apiMel2.maskedBSgenome.Aofficinalis.NCBI.V1BSgenome.Athaliana.TAIR.04232008BSgenome.Athaliana.TAIR.TAIR9BSgenome.Btaurus.UCSC.bosTau3BSgenome.Btaurus.UCSC.bosTau3.maskedBSgenome.Btaurus.UCSC.bosTau4BSgenome.Btaurus.UCSC.bosTau4.maskedBSgenome.Btaurus.UCSC.bosTau6BSgenome.Btaurus.UCSC.bosTau6.maskedBSgenome.Btaurus.UCSC.bosTau8BSgenome.Btaurus.UCSC.bosTau9BSgenome.Btaurus.UCSC.bosTau9.maskedBSgenome.Carietinum.NCBI.v1BSgenome.Celegans.UCSC.ce10BSgenome.Celegans.UCSC.ce11BSgenome.Celegans.UCSC.ce2BSgenome.Celegans.UCSC.ce6BSgenome.Cfamiliaris.UCSC.canFam2BSgenome.Cfamiliaris.UCSC.canFam2.maskedBSgenome.Cfamiliaris.UCSC.canFam3BSgenome.Cfamiliaris.UCSC.canFam3.maskedBSgenome.Cjacchus.UCSC.calJac3BSgenome.Cjacchus.UCSC.calJac4BSgenome.CneoformansVarGrubiiKN99.NCBI.ASM221672v1BSgenome.Creinhardtii.JGI.v5.6BSgenome.Dmelanogaster.UCSC.dm2BSgenome.Dmelanogaster.UCSC.dm2.maskedBSgenome.Dmelanogaster.UCSC.dm3BSgenome.Dmelanogaster.UCSC.dm3.maskedBSgenome.Dmelanogaster.UCSC.dm6BSgenome.Drerio.UCSC.danRer10BSgenome.Drerio.UCSC.danRer11BSgenome.Drerio.UCSC.danRer5BSgenome.Drerio.UCSC.danRer5.maskedBSgenome.Drerio.UCSC.danRer6BSgenome.Drerio.UCSC.danRer6.maskedBSgenome.Drerio.UCSC.danRer7BSgenome.Drerio.UCSC.danRer7.maskedBSgenome.Dvirilis.Ensembl.dvircaf1BSgenome.Ecoli.NCBI.20080805BSgenome.Gaculeatus.UCSC.gasAcu1BSgenome.Gaculeatus.UCSC.gasAcu1.maskedBSgenome.Ggallus.UCSC.galGal3BSgenome.Ggallus.UCSC.galGal3.maskedBSgenome.Ggallus.UCSC.galGal4BSgenome.Ggallus.UCSC.galGal4.maskedBSgenome.Ggallus.UCSC.galGal5BSgenome.Ggallus.UCSC.galGal6BSgenome.Gmax.NCBI.Gmv40BSgenome.Hsapiens.1000genomes.hs37d5BSgenome.Hsapiens.NCBI.GRCh38BSgenome.Hsapiens.NCBI.T2T.CHM13v2.0BSgenome.Hsapiens.UCSC.hg17BSgenome.Hsapiens.UCSC.hg17.maskedBSgenome.Hsapiens.UCSC.hg18BSgenome.Hsapiens.UCSC.hg18.maskedBSgenome.Hsapiens.UCSC.hg19BSgenome.Hsapiens.UCSC.hg19.maskedBSgenome.Hsapiens.UCSC.hg38BSgenome.Hsapiens.UCSC.hg38.dbSNP151.majorBSgenome.Hsapiens.UCSC.hg38.dbSNP151.minorBSgenome.Hsapiens.UCSC.hg38.maskedBSgenome.Hsapiens.UCSC.hs1BSgenome.Mdomestica.UCSC.monDom5BSgenome.Mfascicularis.NCBI.5.0BSgenome.Mfascicularis.NCBI.6.0BSgenome.Mfuro.UCSC.musFur1BSgenome.Mmulatta.UCSC.rheMac10BSgenome.Mmulatta.UCSC.rheMac2BSgenome.Mmulatta.UCSC.rheMac2.maskedBSgenome.Mmulatta.UCSC.rheMac3BSgenome.Mmulatta.UCSC.rheMac3.maskedBSgenome.Mmulatta.UCSC.rheMac8BSgenome.Mmusculus.UCSC.mm10BSgenome.Mmusculus.UCSC.mm10.maskedBSgenome.Mmusculus.UCSC.mm39BSgenome.Mmusculus.UCSC.mm8BSgenome.Mmusculus.UCSC.mm8.maskedBSgenome.Mmusculus.UCSC.mm9BSgenome.Mmusculus.UCSC.mm9.maskedBSgenome.Osativa.MSU.MSU7BSgenome.Ppaniscus.UCSC.panPan1BSgenome.Ppaniscus.UCSC.panPan2BSgenome.Ptroglodytes.UCSC.panTro2BSgenome.Ptroglodytes.UCSC.panTro2.maskedBSgenome.Ptroglodytes.UCSC.panTro3BSgenome.Ptroglodytes.UCSC.panTro3.maskedBSgenome.Ptroglodytes.UCSC.panTro5BSgenome.Ptroglodytes.UCSC.panTro6BSgenome.Rnorvegicus.UCSC.rn4BSgenome.Rnorvegicus.UCSC.rn4.maskedBSgenome.Rnorvegicus.UCSC.rn5BSgenome.Rnorvegicus.UCSC.rn5.maskedBSgenome.Rnorvegicus.UCSC.rn6BSgenome.Rnorvegicus.UCSC.rn7BSgenome.Scerevisiae.UCSC.sacCer1BSgenome.Scerevisiae.UCSC.sacCer2BSgenome.Scerevisiae.UCSC.sacCer3BSgenome.Sscrofa.UCSC.susScr11BSgenome.Sscrofa.UCSC.susScr3BSgenome.Sscrofa.UCSC.susScr3.maskedBSgenome.Tguttata.UCSC.taeGut1BSgenome.Tguttata.UCSC.taeGut1.maskedBSgenome.Tguttata.UCSC.taeGut2BSgenome.Vvinifera.URGI.IGGP12Xv0BSgenome.Vvinifera.URGI.IGGP12Xv2BSgenome.Vvinifera.URGI.IGGP8X
cdf (118)
agcdfath1121501cdfbarley1cdfbovinecdfbsubtiliscdfcanine2cdfcaninecdfceleganscdfchickencdfcitruscdfcottoncdfcyp450cdfdrosgenome1cdfdrosophila2cdfecoli2cdfecoliasv2cdfecolicdfgp53cdfhcg110cdfhgfocuscdfhgu133a2cdfhgu133acdfhgu133atagcdfhgu133bcdfhgu133plus2cdfhgu219cdfhgu95acdfhgu95av2cdfhgu95bcdfhgu95ccdfhgu95dcdfhgu95ecdfhivprtplus2cdfHspechspeccdfhthgu133acdfhthgu133bcdfhthgu133pluspmcdfhtmg430acdfhtmg430bcdfhtmg430pmcdfhtrat230pmcdfhtratfocuscdfhu35ksubacdfhu35ksubbcdfhu35ksubccdfhu35ksubdcdfhu6800cdfhu6800subacdfhu6800subbcdfhu6800subccdfhu6800subdcdfhugene10stv1cdfmaizecdfmedicagocdfmgu74acdfmgu74av2cdfmgu74bcdfmgu74bv2cdfmgu74ccdfmgu74cv2cdfmirna102xgaincdfmirna10cdfmirna20cdfmoe430acdfmoe430bcdfmogene10stv1cdfmouse4302cdfmouse430a2cdfmu11ksubacdfmu11ksubbcdfmu19ksubacdfmu19ksubbcdfmu19ksubccdfmu6500subacdfmu6500subbcdfmu6500subccdfmu6500subdcdfnugohs1a520180cdfnugomm1a520177cdfpaeg1acdfplasmodiumanophelescdfpoplarcdfporcinecdfprimeviewcdfrae230acdfrae230bcdfragene10stv1cdfrat2302cdfrattoxfxcdfrgu34acdfrgu34bcdfrgu34ccdfrhesuscdfricecdfrnu34cdfrtu34cdfsaureuscdfsoybeancdfsugarcanecdftest1cdftest2cdftest3cdftomatocdfu133aaofav2cdfu133x3pcdfvitisviniferacdfwheatcdfxenopuslaeviscdfxlaevis2cdfxtropicaliscdfye6100subacdfye6100subbcdfye6100subccdfye6100subdcdfyeast2cdfygs98cdfzebrafishcdf
ChipDb (176)
adme16cod.dbag.dbath1121501.dbbovine.dbcanine.dbcanine2.dbcelegans.dbchicken.dbclariomdhumanprobeset.dbclariomdhumantranscriptcluster.dbclariomshumanhttranscriptcluster.dbclariomshumantranscriptcluster.dbclariomsmousehttranscriptcluster.dbclariomsmousetranscriptcluster.dbclariomsrathttranscriptcluster.dbclariomsrattranscriptcluster.dbdrosgenome1.dbdrosophila2.dbecoli2.dbh10kcod.dbh20kcod.dbhcg110.dbhgfocus.dbhgu133a.dbhgu133a2.dbhgu133b.dbhgu133plus2.dbhgu219.dbhgu95a.dbhgu95av2.dbhgu95b.dbhgu95c.dbhgu95d.dbhgu95e.dbhguatlas13k.dbhgubeta7.dbhguDKFZ31.dbhgug4100a.dbhgug4101a.dbhgug4110b.dbhgug4111a.dbhgug4112a.dbhguqiagenv3.dbhi16cod.dbHs6UG171.dbHsAgilentDesign026652.dbhta20probeset.dbhta20transcriptcluster.dbhthgu133a.dbhthgu133b.dbhthgu133plusa.dbhthgu133plusb.dbhthgu133pluspm.dbhtmg430a.dbhtmg430b.dbhtmg430pm.dbhtrat230pm.dbhtratfocus.dbhu35ksuba.dbhu35ksubb.dbhu35ksubc.dbhu35ksubd.dbhu6800.dbhuex10stprobeset.dbhuex10sttranscriptcluster.dbhugene10stprobeset.dbhugene10sttranscriptcluster.dbhugene11stprobeset.dbhugene11sttranscriptcluster.dbhugene20stprobeset.dbhugene20sttranscriptcluster.dbhugene21stprobeset.dbhugene21sttranscriptcluster.dbHuO22.dbhwgcod.dbilluminaHumanv1.dbilluminaHumanv2.dbilluminaHumanv3.dbilluminaHumanv4.dbilluminaHumanWGDASLv3.dbilluminaHumanWGDASLv4.dbilluminaMousev1.dbilluminaMousev1p1.dbilluminaMousev2.dbilluminaRatv1.dbindac.dbJazaeriMetaData.dbLAPOINTE.dblumiHumanAll.dblumiMouseAll.dblumiRatAll.dbm10kcod.dbm20kcod.dbmgu74a.dbmgu74av2.dbmgu74b.dbmgu74bv2.dbmgu74c.dbmgu74cv2.dbmguatlas5k.dbmgug4104a.dbmgug4120a.dbmgug4121a.dbmgug4122a.dbmi16cod.dbMmAgilentDesign026655.dbmoe430a.dbmoe430b.dbmoex10stprobeset.dbmoex10sttranscriptcluster.dbmogene10stprobeset.dbmogene10sttranscriptcluster.dbmogene11stprobeset.dbmogene11sttranscriptcluster.dbmogene20stprobeset.dbmogene20sttranscriptcluster.dbmogene21stprobeset.dbmogene21sttranscriptcluster.dbmouse4302.dbmouse430a2.dbmpedbarray.dbmta10probeset.dbmta10transcriptcluster.dbmu11ksuba.dbmu11ksubb.dbMu15v1.dbmu19ksuba.dbmu19ksubb.dbmu19ksubc.dbMu22v3.dbmwgcod.dbNorway981.dbnugohs1a520180.dbnugomm1a520177.dbOperonHumanV3.dbPartheenMetaData.dbpedbarrayv10.dbpedbarrayv9.dbPOCRCannotation.dbporcine.dbr10kcod.dbrae230a.dbrae230b.dbraex10stprobeset.dbraex10sttranscriptcluster.dbragene10stprobeset.dbragene10sttranscriptcluster.dbragene11stprobeset.dbragene11sttranscriptcluster.dbragene20stprobeset.dbragene20sttranscriptcluster.dbragene21stprobeset.dbragene21sttranscriptcluster.dbrat2302.dbrgu34a.dbrgu34b.dbrgu34c.dbrguatlas4k.dbrgug4105a.dbrgug4130a.dbrgug4131a.dbri16cod.dbRnAgilentDesign028282.dbrnu34.dbRoberts2005Annotation.dbrta10probeset.dbrta10transcriptcluster.dbrtu34.dbrwgcod.dbSHDZ.dbSomaScan.dbu133x3p.dbxlaevis.dbyeast2.dbygs98.dbzebrafish.db
db0 (19)
InparanoidDb
OrganismDb (4)
OrgDb (22)
PolyPhen
probe (98)
agprobeath1121501probebarley1probebovineprobebsubtilisprobecanine2probecanineprobecelegansprobechickenprobecitrusprobecottonprobedrosgenome1probedrosophila2probeecoli2probeecoliasv2probeecoliprobeEPICv2manifesthcg110probehgfocusprobehgu133a2probehgu133aprobehgu133atagprobehgu133bprobehgu133plus2probehgu219probehgu95aprobehgu95av2probehgu95bprobehgu95cprobehgu95dprobehgu95eprobehthgu133aprobehthgu133bprobehthgu133pluspmprobehtmg430aprobehtmg430bprobehtmg430pmprobehtrat230pmprobehtratfocusprobehu35ksubaprobehu35ksubbprobehu35ksubcprobehu35ksubdprobehu6800probeHuExExonProbesetLocationhugene10stv1probemaizeprobemedicagoprobemgu74aprobemgu74av2probemgu74bprobemgu74bv2probemgu74cprobemgu74cv2probemirna10probemoe430aprobemoe430bprobeMoExExonProbesetLocationmogene10stv1probemouse4302probemouse430a2probemu11ksubaprobemu11ksubbprobenugohs1a520180probenugomm1a520177probepaeg1aprobeplasmodiumanophelesprobepoplarprobeporcineprobeprimeviewproberae230aproberae230bprobeRaExExonProbesetLocationragene10stv1proberat2302frmavecsrat2302proberattoxfxprobergu34aprobergu34bprobergu34cproberhesusprobericeprobernu34probertu34probesaureusprobesoybeanprobesugarcaneprobetest3probetomatoprobeu133x3pprobevitisviniferaprobewheatprobexenopuslaevisprobexlaevis2probextropicalisprobeyeast2probeygs98probezebrafishprobe
SIFT
SNPlocs (6)
TxDb (51)
FDb.UCSC.tRNAsGenomicStateTxDb.Athaliana.BioMart.plantsmart22TxDb.Athaliana.BioMart.plantsmart25TxDb.Athaliana.BioMart.plantsmart28TxDb.Athaliana.BioMart.plantsmart51TxDb.Btaurus.UCSC.bosTau8.refGeneTxDb.Btaurus.UCSC.bosTau9.refGeneTxDb.Celegans.UCSC.ce11.ensGeneTxDb.Celegans.UCSC.ce11.refGeneTxDb.Celegans.UCSC.ce6.ensGeneTxDb.Cfamiliaris.UCSC.canFam3.refGeneTxDb.Cfamiliaris.UCSC.canFam4.refGeneTxDb.Cfamiliaris.UCSC.canFam5.refGeneTxDb.Cfamiliaris.UCSC.canFam6.refGeneTxDb.Dmelanogaster.UCSC.dm3.ensGeneTxDb.Dmelanogaster.UCSC.dm6.ensGeneTxDb.Drerio.UCSC.danRer10.refGeneTxDb.Drerio.UCSC.danRer11.refGeneTxDb.Ggallus.UCSC.galGal4.refGeneTxDb.Ggallus.UCSC.galGal5.refGeneTxDb.Ggallus.UCSC.galGal6.refGeneTxDb.Hsapiens.BioMart.igisTxDb.Hsapiens.UCSC.hg18.knownGeneTxDb.Hsapiens.UCSC.hg19.knownGeneTxDb.Hsapiens.UCSC.hg19.lincRNAsTranscriptsTxDb.Hsapiens.UCSC.hg19.refGeneTxDb.Hsapiens.UCSC.hg38.knownGeneTxDb.Hsapiens.UCSC.hg38.refGeneTxDb.Mmulatta.UCSC.rheMac10.refGeneTxDb.Mmulatta.UCSC.rheMac3.refGeneTxDb.Mmulatta.UCSC.rheMac8.refGeneTxDb.Mmusculus.UCSC.mm10.ensGeneTxDb.Mmusculus.UCSC.mm10.knownGeneTxDb.Mmusculus.UCSC.mm39.knownGeneTxDb.Mmusculus.UCSC.mm39.refGeneTxDb.Mmusculus.UCSC.mm9.knownGeneTxDb.Osativa.MSU.RGAP7TxDb.Ptroglodytes.UCSC.panTro4.refGeneTxDb.Ptroglodytes.UCSC.panTro5.refGeneTxDb.Ptroglodytes.UCSC.panTro6.refGeneTxDb.Rnorvegicus.BioMart.igisTxDb.Rnorvegicus.UCSC.rn4.ensGeneTxDb.Rnorvegicus.UCSC.rn5.refGeneTxDb.Rnorvegicus.UCSC.rn6.ncbiRefSeqTxDb.Rnorvegicus.UCSC.rn6.refGeneTxDb.Rnorvegicus.UCSC.rn7.refGeneTxDb.Scerevisiae.UCSC.sacCer2.sgdGeneTxDb.Scerevisiae.UCSC.sacCer3.sgdGeneTxDb.Sscrofa.UCSC.susScr11.refGeneTxDb.Sscrofa.UCSC.susScr3.refGene
MeSHDb (1)
FRMA (12)
AnnotationHub (43)
AHCytoBandsAHLRBaseDbsAHMeSHDbsAHPathbankDbsAHPubMedDbsAHWikipathwaysDbsAlphaMissense.v2023.hg19AlphaMissense.v2023.hg38alternativeSplicingEvents.hg19alternativeSplicingEvents.hg38cadd.v1.6.hg19cadd.v1.6.hg38CENTREannotationCTCFENCODExplorerDataEPICv2manifestEpiTxDb.Hs.hg38EpiTxDb.Mm.mm10EpiTxDb.Sc.sacCer3EuPathDBexcluderangesgeneplast.dataGenomicStategwascatDataHPO.dbJASPAR2022JASPAR2024metaboliteIDmappingMPO.dbontoProcDataorg.Hbacteriophora.eg.dborg.Mxanthus.dbPANTHER.dbphastCons30way.UCSC.hg38phastCons35way.UCSC.mm39phyloP35way.UCSC.mm39rGenomeTracksDatascAnnotatR.modelssynaptome.datasynaptome.dbTENET.AnnotationHubTxDb.Osativa.MSU.RGAP7UCSCRepeatMasker
EuPathDB (1)
ExperimentData (434)
adductDataaffycompDataaffydataAffyhgu133A2ExprAffyhgu133aExprAffyhgu133Plus2ExprAffymetrixDataTestFilesAffymoe4302ExprairwayALLALLMLLAmpAffyExampleAnnotatedBCGEDataantiProfilesDataaracne.networksARRmDataAshkenazimSonChr21ASICSdataAssessORFDataAWAggregatorDatabcellViperbeadarrayExampleDataBeadArrayUseCasesBeadSorted.Saliva.EPICbeta7BioImageDbsBioPlexbiotmleDatabiscuiteerDatabladderbatchblimaTestingDataBloodCancerMultiOmics2017bodymapRatbreakpointRdatabreastCancerMAINZbreastCancerNKIbreastCancerTRANSBIGbreastCancerUNTbreastCancerUPPbreastCancerVDXbrgedatabronchialIL13bsseqDatabugphyzzcancerdataCardinalWorkflowsccdataCCl4celarefDatacelldexCellMapperDatacfToolsDataChAMPdataChimpHumanBrainDataChIPDBDatachipenrich.dataChIPexoQualExamplechipseqDBDataChIPXpressDataCLAMPDataCLLCLLmethylationCluMSIDdataclustifyrdatahubcMap2datacnvGSAdataCOHCAPannocolonCACONFESSdataConnectivityMapCOPDSexualDimorphism.dataCopyhelpeRCopyNeutralIMACoSIAdataCOSMIC.67CRCL18crisprScoreDatacuratedAdipoArraycuratedAdipoChIPcuratedAdipoRNAcuratedBladderDatacuratedBreastDatacuratedCRCDatacuratedMetagenomicDatacuratedOvarianDatacuratedPCaDatacuratedTBDatacuratedTCGADataCytoMethICDAPARdataDaparToolshedDatadavidTilingdepmapderfinderDataDeSousa2013DExMAdatadiffloopdatadiggitdataDLBCLDMRcatedataDMRsegaldataDNAZooDatadominatRDataDonaPLLP2013DoReMiTradressCheckDropletTestFilesDrugVsDiseasedataDuoClustering2018DvDdatadyebiasexampleseasierDataEatonEtAlChIPseqecoliLeucineEGSEAdataELMER.dataemtdataEMTscoreDataeoPredDataEpiMix.dataepimutacionsDataEpipwR.dataestrogenetec16sewceDatafaahKOfabiaDataFANTOM3and4CAGEffpeExampleDatafibroEsetFieldEffectCrcFIsfissionFletcher2013aflowPloidyDataFlowSorted.Blood.450kFlowSorted.Blood.EPICFlowSorted.CordBlood.450kFlowSorted.CordBloodCombined.450kFlowSorted.CordBloodNorway.450kFlowSorted.DLPFC.450kflowWorkspaceDatafourDNDatafrmaExampleDatagageDatagaschYHSgcspikelitegDNAinRNAseqDatagDRtestDatageneLenDataBasegenomationDataGenomicDistributionsDataGeuvadisTranscriptExprGIGSEAdatagolubEsetsgpaExamplegrndataGSBenchMarkGSE103322GSE13015GSE159526GSE280465GSE62944GSVAdataGWASdatah5vcDatahapmap100khindhapmap100kxbahapmap500knsphapmap500kstyhapmapsnp5hapmapsnp6harbChIPHarmanDataHarmonizedTCGADataHCADataHCATonsilDataHD2013SGIHDCytoDatahealthyControlsPresenceCheckerhealthyFlowDataHEEBOdataHelloRangesDatahgu133abarcodevecshgu133plus2barcodevecshgu133plus2CellScorehgu2beta7HiBEDHiCDataHumanIMR90HiCDataLymphoblastHiContactsDataHighlyReplicatedRNASeqHiiragi2013HIVcDNAvantWout03HMP16SDataHSMMSingleCellHumanAffyDatahumanHippocampus2024HumanRetinaLRSDatahumanStemCellHuMMANetIHWpaperIllumina450ProbeVariants.dbIlluminaDataTestFilesimcdatasetsiModMixDataITALICSDataIyer517JASPAR2014JASPAR2016JohnsonKinaseDataKEGGandMetacoreDzPathwaysGEOKEGGdzPathwaysGEOkidpackKOdataleeBamViewsLegAToleukemiasEsetLiebermanAidenHiC2009ListerEtAlBSseqLRcellTypeMarkerslumiBarnesLungCancerACvsSCCGEOLungCancerLineslungExpressionlydataM3DExampleDatamacrophageMACSdatamammaPrintDatamaqcExpression4plexMAQCsubsetmarinerDatamCSEAdatamcsurvdataMEDIPSDataMEEBOdataMerfishDataMetaGxBreastMetaGxOvarianMetaGxPancreasmetaMSdataMetaScopeMethylAidDatamethylclockDataMethylSeqDataMicrobiomeBenchmarkDatamicrobiomeDataSetsmicroRNAomeminfiDataminfiDataEPICminionSummaryDatamiRcompDatamiRNATargetMMDiffBamSubsetMOFAdatamosaicsExamplemouse4302barcodevecsMouseAgingDataMouseGastrulationDataMouseThymusAgeingmsd16smsdatamsigdbMSMBmsPurityDatamsqc1mtbls2MUGAExampleDatamuleaDatamultiWGCNAdatamuscDatamuSpaDataMutSeqRDatamvoutDataNanoporeRNASeqnanotubesNCIgraphDataNestLinkNetActivityDataNeve2006NGScopyDatanmrdatanullrangesDataNxtIRFdataObMiTioct4octad.dbOMICsPCAdataOnassisJavaLibsoptimalFlowDataorthosDatapasillapasillaBamSubsetPasillaTranscriptExprPathNetDataPCHiCdatapd.atdschip.tilingpepDatPepsNMRDataPhyloProfileDataplotgardenerDataprebsdatapreciseTADhubPREDAsampledataProDatapRolocdataprostateCancerCamcapprostateCancerGrassoprostateCancerStockholmprostateCancerTaylorprostateCancerVaramballyProteinGymRptairDataPtH2O2lipidspumadataPWMEnrich.Dmelanogaster.backgroundPWMEnrich.Hsapiens.backgroundPWMEnrich.Mmusculus.backgroundQDNAseq.hg19QDNAseq.mm10qPLEXdataQUBICdataraerdatarcellminerDataRcisTarget.hg19.motifDBs.cisbpOnly.500bpReactomeGSA.dataRegParallelRforProteomicsrheumaticConditionWOLLBOLDRITANdataRMassBankDataRNAmodR.DataRNAseqData.HNRNPC.bam.chr14RnaSeqSampleSizeDataRnBeads.hg19RnBeads.hg38RnBeads.mm10RnBeads.mm9RnBeads.rn5RRBSdataRTCGA.clinicalRTCGA.CNVRTCGA.methylationRTCGA.miRNASeqRTCGA.mRNARTCGA.mutationsRTCGA.PANCAN12RTCGA.rnaseqRTCGA.RPPARUVnormalizeDatasampleClassifierDataSBGNview.datascaeDatascanMiRDatascATAC.ExplorerSCLCBamscMultiomescpdatascRNAseqscTHI.dataseq2pathway.dataseqcserumStimulationsesameDataseventyGeneDataSFEDatashinyMethylDatasignatureSearchDataSimBenchDatasimpIntListsSingle.mTEC.TranscriptomesSingleCellMultiModalSingleMoleculeFootprintingDatasmokingMouseSNADataSNAGEEdataSNPhoodDataSomatiCADataSomaticCancerAlterationsSpaMTPDataSpatialDatasetsspatialDmelxsimspatialLIBDSpikeInSp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ReproducibleResearch (36)
BioPlexBloodCancerMultiOmics2017bugphyzzcfToolsDatacuratedMetagenomicDatacuratedPCaDatacuratedTCGADatadavidTilingdepmapeasierDataFieldEffectCrcHarmonizedTCGADataHiiragi2013HMP16SDataIHWpaperimcdatasetsLegAToMetaScopeMicrobiomeBenchmarkDataMOFAdatamsqc1NestLinkPhyloProfileDataProteinGymRPtH2O2lipidsRforProteomicsscpdataSingleCellMultiModalSpaMTPDataSpatialDatasetsSTexampleDatasystemPipeRdataTENxVisiumDatatuberculosisVectraPolarisDataWeberDivechaLCdata
SpecimenSource (123)
Tissue (47)
affydataAnnotatedBCGEDataantiProfilesDataBioImageDbscfToolsDataChimpHumanBrainDatacolonCACOPDSexualDimorphism.dataCoSIAdatacuratedBreastDatadepmapdominatRDataDonaPLLP2013eoPredDataEpipwR.dataFANTOM3and4CAGEffpeExampleDataFieldEffectCrcFlowSorted.Blood.450kFlowSorted.Blood.EPICFlowSorted.CordBlood.450kFlowSorted.CordBloodCombined.450kFlowSorted.CordBloodNorway.450kFlowSorted.DLPFC.450kGSE159526GSE280465GSVAdataHiBEDhumanHippocampus2024imcdatasetsleukemiasEsetlumiBarnesM3DExampleDatamethylclockDataPREDAsampledatarheumaticConditionWOLLBOLDscATAC.ExplorerscMultiomeSFEDataSimBenchDataspatialLIBDspqnDatastemHypoxiaTENET.ExperimentHubtissueTregTransOmicsDataXhybCasneuf
Proteome (12)
Genome (68)
Affyhgu133A2ExprAffyhgu133Plus2ExprAffymoe4302ExprAnnotatedBCGEDataaracne.networksAssessORFDatabcellViperBeadSorted.Saliva.EPICBioPlexbiscuiteerDatabreakpointRdatabreastCancerVDXbsseqDataCCl4ChIPexoQualExamplecnvGSAdataCOSMIC.67CytoMethICdavidTilingdepmapDMRcatedataDMRsegaldatadressCheckEpiMix.dataewceDataffpeExampleDatafibroEsetfissionFlowSorted.Blood.EPICFlowSorted.CordBloodCombined.450kgaschYHSgeneLenDataBasegenomationDataGenomicDistributionsDataGeuvadisTranscriptExprgolubEsetsGSE103322GSE159526GSE62944hgu133plus2CellScorehgu2beta7HiBEDHiCDataHumanIMR90leukemiasEsetLiebermanAidenHiC2009LungCancerLinesMEDIPSDataMMDiffBamSubsetMutSeqRDataNanoporeRNASeqNxtIRFdatapasillapasillaBamSubsetPasillaTranscriptExprplotgardenerDatapreciseTADhubRNAseqData.HNRNPC.bam.chr14scATAC.ExplorersesameDatashinyMethylDataSomatiCADataSomaticCancerAlterationsTCGAMethylation450kTENET.ExperimentHubtweeDEseqCountDataWGSmappyeastExpDatayeastNagalakshmi
CellCulture (13)
Germline
Somatic (2)
OrganismData (163)
AssessORFDataCoSIAdatadepmapDExMAdataELMER.datamethylclockDataPepsNMRDataQDNAseq.hg19QDNAseq.mm10QUBICdataTCGAbiolinksGUI.data
Anopheles_gambiae_Data
Apis_mellifera_Data
Arabidopsis_lyrata_Data
Arabidopsis_thaliana_Data (7)
Bacillus_subtilis_Data (2)
Bos_taurus_Data
Callithrix_jacchus_Data
Canis_familiaris_Data
Ciona_intestinalis_Data
Danio_rerio_Data (3)
Drosophila_melanogaster_Data (7)
Drosophila_virilis_Data
Eremothecium_gossypii_Data
Escherichia_coli_Data (4)
Gallus_gallus_Data
Gasterosteus_aculeatus_Data
Glycine_max_Data
Homo_sapiens_Data (123)
Affyhgu133A2ExprAffyhgu133aExprAffyhgu133Plus2ExprAnnotatedBCGEDataaracne.networksASICSdatabcellViperbeadarrayExampleDataBeadSorted.Saliva.EPICbeta7BioPlexbiscuiteerDatabreakpointRdatabreastCancerVDXbrgedataChimpHumanBrainDataChIPDBDataChIPXpressDatacMap2dataCOHCAPannoCONFESSdataCopyNeutralIMACoSIAdatacrisprScoreDatacuratedMetagenomicDatacuratedPCaDatacuratedTBDatacuratedTCGADatadepmapderfinderDataDMRcatedataDrugVsDiseasedataEGSEAdataemtdataeoPredDataepimutacionsDatafibroEsetFieldEffectCrcFIsFlowSorted.Blood.450kFlowSorted.Blood.EPICFlowSorted.CordBlood.450kFlowSorted.CordBloodCombined.450kFlowSorted.CordBloodNorway.450kFlowSorted.DLPFC.450kfrmaExampleDatagDNAinRNAseqDataGeuvadisTranscriptExprGIGSEAdatagpaExampleGSE103322GSE159526GSE280465GSVAdataHarmanDataHD2013SGIHDCytoDatahgu133abarcodevecshgu133plus2barcodevecshgu133plus2CellScoreHiBEDHiCDataHumanIMR90HiCDataLymphoblastHMP16SDataHumanAffyDataHumanRetinaLRSDatahumanStemCellHuMMANetIllumina450ProbeVariants.dbimcdatasetsJohnsonKinaseDataKOdataleukemiasEsetListerEtAlBSseqmCSEAdatamcsurvdataMetaGxBreastMetaGxOvarianMetaGxPancreasmethylclockDataMethylSeqDataminfiDataminfiDataEPICmiRcompDatamiRNATargetmsigdbmuleaDatamultiWGCNAdatamuscDatanullrangesDataPCHiCdataPepsNMRDataplotgardenerDatapRolocdataProteinGymRPWMEnrich.Hsapiens.backgroundQDNAseq.hg19RcisTarget.hg19.motifDBs.cisbpOnly.500bpReactomeGSA.dataRNAseqData.HNRNPC.bam.chr14scaeDatascanMiRDatascMultiomeSFEDataSpaMTPDataSpatialDatasetsspatialLIBDspqnDatastemHypoxiaSTexampleDataSubcellularSpatialDatasystemPipeRdataTCGAWorkflowDataTENET.ExperimentHubTENxVisiumDatatuberculosistweeDEseqCountDataVectraPolarisDatavulcandataWeberDivechaLCdataWES.1KG.WUGSCWGSmappxcoredata
Hordeum_vulgare_Data
Kluyveromyces_lactis_Data
Macaca_mulatta_Data
Magnaporthe_grisea_Data
Medicago_truncatul_Data
Monodelphis_domestica_Data
Mus_musculus_Data (30)
Affymoe4302ExprChIPXpressDataCoSIAdataDMRcatedataEGSEAdataHarmanDataM3DExampleDataMerfishDataMethylSeqDataMMDiffBamSubsetmouse4302barcodevecsMouseAgingDataMouseGastrulationDatamsigdbMUGAExampleDatamultiWGCNAdataMutSeqRDataPCHiCdatapRolocdataPWMEnrich.Mmusculus.backgroundQDNAseq.mm10scanMiRDataSFEDatasmokingMouseSpaMTPDataSpatialDatasetsSTexampleDataSubcellularSpatialDataTENxVisiumDatatissueTreg
Neurospora_crassa_Data
Oncorhynchus_mykiss_Data
Oryza_sativa_Data
Pan_paniscus_Data
Pan_troglodytes_Data (2)
Plasmodium_falciparum_Data
Pseudomonas_aeruginosa_Data (2)
Rattus_norvegicus_Data (5)
Saccharomyces_cerevisiae_Data (12)
Saccharum_officinarum_Data
Schizosaccharomyces_pombe_Data
Staphylococcus_aureus_Data (2)
Sus_scrofa_Data
Taeniopygia_guttata_Data
Triticum_aestivum_Data
Vitis_vinifera_Data
Xenopus_laevis_Data
Xenopus_tropicalis_Data
Zea_mays_Data
DiseaseModel (96)
CancerData (93)
ALLALLMLLAnnotatedBCGEDataantiProfilesDataaracne.networksbcellViperbladderbatchBloodCancerMultiOmics2017breastCancerMAINZbreastCancerNKIbreastCancerTRANSBIGbreastCancerUNTbreastCancerUPPbreastCancerVDXbsseqDatacancerdatacfToolsDataCLLCLLmethylationcolonCAConnectivityMapCOSMIC.67CRCL18curatedBladderDatacuratedBreastDatacuratedCRCDatacuratedOvarianDatacuratedPCaDatacuratedTCGADataCytoMethICdepmapDeSousa2013DLBCLeasierDataEMTscoreDatafabiaDataFletcher2013agageDatagolubEsetsGSE103322GSVAdatah5vcDatahapmap100khindhapmap100kxbahapmap500knsphapmap500kstyhapmapsnp5HarmonizedTCGADataHD2013SGIIllumina450ProbeVariants.dbkidpackKOdataleukemiasEsetLungCancerACvsSCCGEOLungCancerLineslungExpressionmammaPrintDatamaqcExpression4plexMetaGxBreastMetaGxOvarianMetaGxPancreasmicroRNAomeNeve2006NGScopyDataoctad.dbPREDAsampledataProDataprostateCancerCamcapprostateCancerGrassoprostateCancerStockholmprostateCancerTaylorprostateCancerVaramballyrcellminerDataRnaSeqSampleSizeDataRRBSdataSBGNview.dataseventyGeneDatashinyMethylDataSomatiCADataSomaticCancerAlterationsstemHypoxiaTCGAcrcmiRNATCGAcrcmRNATCGAMethylation450kTCGAWorkflowDataTENET.ExperimentHubTMExplorervulcandatayeastCC
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KidneyCancerData (3)
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LungCancerData (8)
OvarianCancerData (2)
HIVData (1)
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TechnologyData (313)
FlowCytometryData (5)
HighThroughputImagingData (3)
MassSpectrometryData (27)
adductDataAWAggregatorDataBioPlexCardinalWorkflowsCluMSIDdataDAPARdataDaparToolshedDatafaahKOgcspikeliteiModMixDatametaMSdatamsdatamsPurityDatamsqc1mtbls2NestLinkProDatapRolocdataptairDataPtH2O2lipidsqPLEXdataRforProteomicsRMassBankDatascpdatatartaretopdownrdataTransOmicsData
ImagingMassSpectrometryData (1)
qPCRData (4)
MicrotitrePlateAssayData (1)
SAGEData (1)
SequencingData (165)
airwayAnnotatedBCGEDataAssessORFDatabodymapRatbreakpointRdatabsseqDatacelldexChIPDBDatachipseqDBDataclustifyrdatahubCoSIAdatacuratedAdipoChIPcuratedAdipoRNAdiffloopdataDMRcatedataDMRsegaldataDNAZooDataDropletTestFilesEatonEtAlChIPseqetec16sewceDataFieldEffectCrcfissionfourDNDatagDNAinRNAseqDatagenomationDataGeuvadisTranscriptExprGSVAdataharbChIPHelloRangesDataHiContactsDataHighlyReplicatedRNASeqHMP16SDatahumanHippocampus2024JASPAR2014leeBamViewsLegAToLiebermanAidenHiC2009ListerEtAlBSseqmacrophagemarinerDataMEDIPSDataMetaGxPancreasMetaScopeMethylSeqDataMicrobiomeBenchmarkDatamicrobiomeDataSetsmicroRNAomeminionSummaryDataMouseAgingDataMouseGastrulationDatamsd16sMutSeqRDataNanoporeRNASeqnanotubesNestLinkNGScopyDatanullrangesDataoct4octad.dbOMICsPCAdataPasillaTranscriptExprPCHiCdataprebsdataProteinGymRraerdataRNAmodR.DataRNAseqData.HNRNPC.bam.chr14RRBSdatasampleClassifierDatascATAC.ExplorerSCLCBamscMultiomescRNAseqseqcSimBenchDataSingleMoleculeFootprintingDataSomatiCADataspatialDmelxsimspatialLIBDsystemPipeRdataTBX20BamSubsetTENxBrainDataTENxBUSDataTENxPBMCDatatinesath1probetissueTregTMExplorerTransOmicsDatatuberculosistximportDataVariantToolsDataWeberDivechaLCdataWES.1KG.WUGSCWGSmappyeastNagalakshmiyeastRNASeq
DNASeqData (10)
RNASeqData (80)
airwayBioPlexbodymapRatcelldexCLAMPDataclustifyrdatahubCoSIAdatacuratedAdipoRNAcuratedCRCDatacuratedOvarianDatacuratedPCaDataderfinderDataDoReMiTraDropletTestFileseasierDataemtdataEMTscoreDataEpiMix.dataewceDataFieldEffectCrcfissiongDNAinRNAseqDataGeuvadisTranscriptExprGSE103322GSE62944HCADataHCATonsilDataHighlyReplicatedRNASeqHSMMSingleCellhumanHippocampus2024HumanRetinaLRSDataIHWpaperleeBamViewsLRcellTypeMarkersLungCancerLinesM3DExampleDatamacrophagemicroRNAomeMouseAgingDataMouseGastrulationDatamultiWGCNAdataNanoporeRNASeqNxtIRFdataObMiTioct4orthosDatapasillapasillaBamSubsetPasillaTranscriptExprprebsdataraerdataReactomeGSA.dataRNAmodR.DataRNAseqData.HNRNPC.bam.chr14RnaSeqSampleSizeDatasampleClassifierDataSBGNview.datascRNAseqseqcSimBenchDatasmokingMousespatialDmelxsimspqnDatasystemPipeRdataTabulaMurisDataTabulaMurisSenisDataTargetScoreDataTBX20BamSubsetTENET.ExperimentHubTENxBrainDataTENxPBMCDatatimecoursedatatissueTregTMExplorerTransOmicsDatatweeDEseqCountDatatximportDataWeberDivechaLCdatayeastRNASeqzebrafishRNASeq
ChIPSeqData (16)
RIPSeqData
MethylSeqData (1)
ExomeSeqData
miRNAData (7)
SangerSeqData
SmallRNAData (1)
MicrobiomeData (10)
SingleCellData (42)
breakpointRdatacelarefDataclustifyrdatahubDropletTestFilesDuoClustering2018EMTscoreDataewceDataGSE103322HCADataHCATonsilDataHDCytoDataimcdatasetsLRcellTypeMarkersMerfishDataMouseAgingDataMouseGastrulationDataMouseThymusAgeingmuscDatamuSpaDataraerdatascaeDatascATAC.ExplorerscMultiomescpdatascRNAseqscTHI.dataSFEDataSimBenchDataSingleCellMultiModalSpatialDatasetsspatialLIBDSTexampleDatasystemPipeRdataTabulaMurisDataTabulaMurisSenisDataTENxBrainDataTENxBUSDataTENxPBMCDataTMExplorerVectraPolarisDataWeberDivechaLCdataWGSmapp
MicroarrayData (133)
affycompDataaffydataAffymetrixDataTestFilesALLMLLAmpAffyExampleAnnotatedBCGEDataantiProfilesDatabeadarrayExampleDataBeadArrayUseCasesBeadSorted.Saliva.EPICbeta7bladderbatchblimaTestingDatabreastCancerMAINZbreastCancerNKIbreastCancerTRANSBIGbreastCancerUNTbreastCancerUPPbreastCancerVDXbrgedatabronchialIL13cancerdataccdataCCl4CellMapperDataChimpHumanBrainDataCLLclustifyrdatahubcMap2dataCOHCAPannocolonCAConnectivityMapCopyNeutralIMAcuratedAdipoArraycuratedBladderDatacuratedBreastDatacuratedCRCDatacuratedOvarianDatacuratedPCaDataCytoMethICdavidTilingDeSousa2013DExMAdataDLBCLDMRcatedataDMRsegaldataDrugVsDiseasedatadyebiasexamplesecoliLeucineepimutacionsDataEpipwR.dataestrogenewceDatafabiaDataffpeExampleDatafibroEsetFletcher2013aFlowSorted.Blood.450kFlowSorted.Blood.EPICFlowSorted.CordBlood.450kFlowSorted.CordBloodCombined.450kFlowSorted.CordBloodNorway.450kFlowSorted.DLPFC.450kfrmaExampleDatagageDataGSBenchMarkGSE13015GSE280465GWASdataHarmanDatahgu133abarcodevecshgu133plus2barcodevecshgu133plus2CellScoreHiBEDHiiragi2013HIVcDNAvantWout03HumanAffyDataIlluminaDataTestFilesKEGGdzPathwaysGEOkidpackleukemiasEsetlumiBarnesLungCancerACvsSCCGEOlydatamammaPrintDataMAQCsubsetmCSEAdatamcsurvdataMetaGxBreastMetaGxOvarianMetaGxPancreasMethylAidDataminfiDataminfiDataEPICmouse4302barcodevecsmultiWGCNAdatamvoutDatapd.atdschip.tilingpepDatPREDAsampledataprostateCancerCamcapprostateCancerGrassoprostateCancerStockholmprostateCancerTaylorprostateCancerVaramballypumadatarcellminerDatarheumaticConditionWOLLBOLDRUVnormalizeDatasampleClassifierDataSBGNview.dataserumStimulationsesameDataseventyGeneDataSNAGEEdataSpikeInSpikeInSubsetstemHypoxiaTCGAWorkflowDataTENET.ExperimentHubtimecoursedatatinesath1probetuberculosisXhybCasneufyeastCC
MultiChannelData (1)
OneChannelData (3)
MethylationArrayData (25)
ARRmDataBeadSorted.Saliva.EPICbrgedataCOHCAPannoCopyNeutralIMACytoMethICeoPredDataepimutacionsDataEpipwR.dataFlowSorted.Blood.450kFlowSorted.Blood.EPICFlowSorted.CordBlood.450kFlowSorted.CordBloodCombined.450kFlowSorted.CordBloodNorway.450kFlowSorted.DLPFC.450kGSE159526GSE280465HiBEDmCSEAdataMethylAidDataminfiDataminfiDataEPICsesameDataTCGAMethylation450kTENET.ExperimentHub
GenotypingArrayData
MicroRNAArrayData
mRNAArrayData
ChipOnChipData (10)
ReversePhaseProteinArrayData
TissueMicroarrayData (18)
affydataAnnotatedBCGEDataChimpHumanBrainDatacolonCAcuratedBreastDataEpipwR.dataffpeExampleDataFlowSorted.Blood.450kFlowSorted.Blood.EPICFlowSorted.CordBlood.450kFlowSorted.CordBloodCombined.450kFlowSorted.CordBloodNorway.450kFlowSorted.DLPFC.450kleukemiasEsetPREDAsampledatarheumaticConditionWOLLBOLDstemHypoxiaXhybCasneuf
ProprietaryPlatformsData
AssayDomainData (107)
CopyNumberVariationData (4)
CpGIslandData (2)
SNPData (13)
ExpressionData (90)
AnnotatedBCGEDataBioPlexbodymapRatccdatacelldexCellMapperDataCLAMPDataclustifyrdatahubCONFESSdataCoSIAdatacuratedBladderDatacuratedBreastDatacuratedCRCDatacuratedOvarianDatacuratedPCaDataDoReMiTraDropletTestFilesemtdataEMTscoreDataEpiMix.dataewceDataFieldEffectCrcFletcher2013agDNAinRNAseqDataGeuvadisTranscriptExprGSE103322GSVAdataHarmanDataHCADataHCATonsilDataHDCytoDatahealthyControlsPresenceCheckerhgu133plus2CellScoreHighlyReplicatedRNASeqHumanAffyDatahumanHippocampus2024HumanRetinaLRSDataIHWpaperiModMixDataKOdataLRcellTypeMarkersM3DExampleDatamammaPrintDataMerfishDataMetaGxBreastMetaGxOvarianMetaGxPancreasmiRcompDataMouseAgingDataMouseGastrulationDataMouseThymusAgeingmuleaDatamultiWGCNAdatamuscDatamuSpaDatananotubesNxtIRFdataoctad.dbOMICsPCAdataPasillaTranscriptExprplotgardenerDataprostateCancerCamcapprostateCancerGrassoprostateCancerStockholmprostateCancerTaylorprostateCancerVaramballyraerdatarcellminerDataReactomeGSA.datasampleClassifierDatascATAC.ExplorerscMultiomescpdatascRNAseqSFEDatasignatureSearchDatasmokingMousespatialDmelxsimspatialLIBDspqnDataSTexampleDataTENET.ExperimentHubTENxBrainDataTENxBUSDataTENxPBMCDataTENxVisiumDatatimecoursedataTMExplorertuberculosisWeberDivechaLCdata
RepositoryData (100)
HapMap (9)
GEO (70)
Affyhgu133A2ExprAffyhgu133aExprAffyhgu133Plus2ExprAffymoe4302ExprairwayAnnotatedBCGEDataBioPlexblimaTestingDatabreastCancerMAINZbreastCancerTRANSBIGbreastCancerUNTbreastCancerUPPbreastCancerVDXChimpHumanBrainDataChIPXpressDatacMap2dataCOHCAPannoCopyNeutralIMAcuratedAdipoArraycuratedAdipoChIPcuratedAdipoRNAcuratedBladderDatacuratedBreastDatacuratedCRCDatacuratedOvarianDatacuratedPCaDatacuratedTBDataDoReMiTraDvDdataEatonEtAlChIPseqeoPredDataffpeExampleDatafissiongageDataGSE103322GSE159526GSE280465healthyControlsPresenceCheckerhgu133plus2CellScoreHiCDataHumanIMR90HumanAffyDataKEGGandMetacoreDzPathwaysGEOKEGGdzPathwaysGEOleukemiasEsetLiebermanAidenHiC2009LungCancerACvsSCCGEOM3DExampleDataMAQCsubsetmcsurvdataMetaGxBreastMetaGxOvarianMetaGxPancreasmuscDataObMiTiPasillaTranscriptExprprostateCancerCamcapprostateCancerGrassoprostateCancerStockholmprostateCancerTaylorprostateCancerVaramballyrheumaticConditionWOLLBOLDRNAseqData.HNRNPC.bam.chr14SBGNview.datascATAC.ExplorerscMultiomeSingleCellMultiModalspatialDmelxsimstemHypoxiaTMExploreryeastCC
ArrayExpress (15)
NCI (9)
PathwayInteractionDatabase (2)
Project1000genomes (2)
PackageTypeData (122)
AWAggregatorDataclustifyrdatahubCoSIAdataCytoMethICdepmapdominatRDataDoReMiTraHiBEDimcdatasetsLRcellTypeMarkersMouseAgingDataNxtIRFdataoptimalFlowDatapreciseTADhubProteinGymRraerdatascATAC.ExplorerscMultiomescpdataspatialLIBDTMExplorer
ExperimentHub (117)
adductDataAWAggregatorDataBeadSorted.Saliva.EPICBioImageDbsBioPlexbiscuiteerDatabodymapRatcelarefDatacelldexcfToolsDataChIPDBDatachipseqDBDataCLAMPDataclustifyrdatahubCoSIAdatacrisprScoreDatacuratedAdipoArraycuratedAdipoChIPcuratedMetagenomicDatacuratedPCaDatacuratedTBDatacuratedTCGADataCytoMethICDaparToolshedDatadepmapDMRcatedataDMRsegaldataDoReMiTraDropletTestFileseasierDataemtdataEMTscoreDataeoPredDataEpiMix.dataepimutacionsDataEpipwR.dataewceDataFieldEffectCrcFlowSorted.Blood.EPICFlowSorted.CordBloodCombined.450kgDNAinRNAseqDataGenomicDistributionsDataGSE103322GSE13015GSE159526GSE280465HCADataHCATonsilDataHDCytoDataHiContactsDataHighlyReplicatedRNASeqHMP16SDatahumanHippocampus2024HuMMANetimcdatasetsiModMixDataJohnsonKinaseDataLRcellTypeMarkersMACSdatamarinerDataMerfishDataMetaGxBreastMetaGxOvarianMetaGxPancreasmethylclockDataMethylSeqDatamicrobiomeDataSetsMouseAgingDataMouseGastrulationDataMouseThymusAgeingmsigdbmuleaDatamultiWGCNAdatamuscDatamuSpaDataMutSeqRDataNanoporeRNASeqNestLinknmrdatanullrangesDataNxtIRFdataObMiTioctad.dborthosDataPhyloProfileDatapreciseTADhubProteinGymRraerdatascaeDatascMultiomescpdatascRNAseqsesameDataSFEDatasignatureSearchDataSimBenchDataSingleCellMultiModalSingleMoleculeFootprintingDatasmokingMouseSpaMTPDataSpatialDatasetsspatialDmelxsimspatialLIBDSTexampleDataSubcellularSpatialDataTabulaMurisSenisDatatartareTENET.ExperimentHubTENxBUSDataTENxPBMCDataTENxVisiumDataTENxXeniumDataTransOmicsDatatuberculosisVectraPolarisDataWeberDivechaLCdataxcoredata
ImmunoOncologyData (5)
Workflow (26)
arraysBP4RNAseqCAGEWorkflowchipseqDBcsawUsersGuidecytofWorkflowEGSEA123ExpHunterSuiteExpressionNormalizationWorkflowfluentGenomicsgeneregulationGeoMxWorkflowshighthroughputassaysliftOvermaEndToEndmethylationArrayAnalysisrecountWorkflowRNAseq123rnaseqDTUrnaseqGeneRnaSeqGeneEdgeRQLsavingBiocObjectsseqpacsequencingsimpleSingleCellvariants
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