Files in BIMSBbioinfo/RCAS

RNA Centric Annotation System

R/data.R R/databaseSetUpFunctions.R R/enrichment_analysis.R R/meta_analysis_functions.R R/motif_analysis.R R/plotting_functions.R R/report_functions.R README.md inst/reporting_scripts/report.Rmd inst/reporting_scripts/reportMetaAnalysis.Rmd man/calculateCoverageProfile.Rd man/calculateCoverageProfileFromTxdb.Rd man/calculateCoverageProfileList.Rd man/calculateCoverageProfileListFromTxdb.Rd man/checkSeqDb.Rd man/createControlRegions.Rd man/createDB.Rd man/createOrthologousGeneSetList.Rd man/deleteSampleDataFromDB.Rd man/discoverFeatureSpecificMotifs.Rd man/extractSequences.Rd man/findDifferentialMotifs.Rd man/findEnrichedFunctions.Rd man/generateKmers.Rd man/getFeatureBoundaryCoverage.Rd man/getFeatureBoundaryCoverageBin.Rd man/getFeatureBoundaryCoverageMulti.Rd man/getIntervalOverlapMatrix.Rd man/getMotifSummaryTable.Rd man/getPWM.Rd man/getTargetedGenesTable.Rd man/getTxdbFeatures.Rd man/getTxdbFeaturesFromGRanges.Rd man/gff.Rd man/importBed.Rd man/importBedFiles.Rd man/importGtf.Rd man/parseMsigdb.Rd man/plotFeatureBoundaryCoverage.Rd man/printMsigdbDataset.Rd man/queryGff.Rd man/queryRegions.Rd man/retrieveOrthologs.Rd man/runGSEA.Rd man/runMotifDiscovery.Rd man/runMotifRG.Rd man/runReport.Rd man/runReportMetaAnalysis.Rd man/runTopGO.Rd man/summarizeDatabaseContent.Rd man/summarizeQueryRegions.Rd man/summarizeQueryRegionsMulti.Rd tests/testthat.R tests/testthat/test_data.R tests/testthat/test_database_functions.R tests/testthat/test_motif.R tests/testthat/test_report.R tests/testthat/test_txdbfeatures.R vignettes/RCAS.metaAnalysis.vignette.Rmd vignettes/RCAS.vignette.Rmd