RCAS
RNA Centric Annotation System

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RCAS: RNA Centric Annotation System
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Man pages

Man pages for RCAS
RNA Centric Annotation System

calculateCoverageProfilecalculateCoverageProfile
calculateCoverageProfileFromTxdbcalculateCoverageProfileFromTxdb
calculateCoverageProfileListcalculateCoverageProfileList
calculateCoverageProfileListFromTxdbcalculateCoverageProfileListFromTxdb
checkSeqDbcheckSeqDb
createControlRegionscreateControlRegions
createDBcreateDB
createOrthologousGeneSetListcreateOrthologousMsigdbDataset This function is deprecated....
deleteSampleDataFromDBdeleteSampleDataFromDB
discoverFeatureSpecificMotifsdiscoverFeatureSpecificMotifs
extractSequencesextractSequences
findDifferentialMotifsFind Differential Motifs
findEnrichedFunctionsfindEnrichedFunctions
generateKmersGenerate K-mers
getFeatureBoundaryCoveragegetFeatureBoundaryCoverage
getFeatureBoundaryCoverageBingetFeatureBoundaryCoverageBin
getFeatureBoundaryCoverageMultigetFeatureBoundaryCoverageMulti
getIntervalOverlapMatrixgetIntervalOverlapMatrix
getMotifSummaryTablegetMotifSummaryTable
getTargetedGenesTablegetTargetedGenesTable
getTxdbFeaturesgetTxdbFeatures
getTxdbFeaturesFromGRangesgetTxdbFeaturesFromGRanges
gffSample GFF file imported as a GRanges object
importBedimportBed
importBedFilesimportBedFiles
importGtfimportGtf
parseMsigdbparseMsigdb
plotFeatureBoundaryCoverageplotFeatureBoundaryCoverage
printMsigdbDatasetPrint MSIGDB Dataset to a file
queryGffqueryGff
queryRegionsSample BED file imported as a GRanges object
retrieveOrthologsretrieveOrthologs
runGSEArunGSEA
runMotifDiscoveryrunMotifDiscovery
runMotifRGrun motifRG
runReportGenerate a RCAS Report for a list of transcriptome-level...
runReportMetaAnalysisrunReportMetaAnalysis
runTopGOrunTopGO
summarizeDatabaseContentsummarizeDatabaseContent
summarizeQueryRegionssummarizeQueryRegions
summarizeQueryRegionsMultisummarizeQueryRegionsMulti
RCAS documentation built on Nov. 8, 2020, 8:03 p.m.

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