Files in Roleren/uORFomePipe

uORF prediction in R

R/Classifier.R R/ClassifierHelpers.R R/ClassifierStats.R R/ClassifierTrainingData.R R/DataBaseCreator.R R/DataBaseGetters.R R/DataBaseGroupers.R R/DataBaseValidation.R R/GO_analysis.R R/GRangesHelpers.R R/GenomicGetters.R R/Init.R R/PipelineParts.R R/TissueTables.R R/Utils.R R/databaseHelpers.R R/features.R README.md man/allLeadersSpanningLeader.Rd man/artificial.from.cds.Rd man/atlasTissue.Rd man/checkAndInitPipe.Rd man/createCatalogueDB.Rd man/createDataBase.Rd man/createGRObjects.Rd man/createUORFAtlas.Rd man/createUniqueIDs.Rd man/deleteDataBase.Rd man/deleteTable.Rd man/deleteUorfTables.Rd man/feature.boxplots.Rd man/featureAnalysis.Rd man/findClassificationBoundary.Rd man/find_uORFome.Rd man/fixNAandINFTable.Rd man/forest.Rd man/getAll.Rd man/getAllLeaderChanges.Rd man/getAllORFGeneSymbols.Rd man/getAllSequenceFeaturesTable.Rd man/getAllUORFData.Rd man/getBestIsoformStartCodonCoverage.Rd man/getBiomartFromOrganism.Rd man/getCDS.Rd man/getCDSFiltered.Rd man/getCDSTraining.Rd man/getCageTx.Rd man/getCandidateuORFs.Rd man/getFasta.Rd man/getGTF.Rd man/getGeneralRiboFeatures.Rd man/getIDsFromUorfs.Rd man/getLeaders.Rd man/getLeadersFromCage.Rd man/getORFNamesDB.Rd man/getORFsGoTerms.Rd man/getSequenceFeatures.Rd man/getSpecialThreeUTRs.Rd man/getThreeUTRs.Rd man/getTissueFromFeatureTable.Rd man/getTissueTable.Rd man/getTx.Rd man/getUorfsInDb.Rd man/insertTable.Rd man/leaderCage.Rd man/linkORFsToTx.Rd man/listTables.Rd man/makeCombinedPrediction.Rd man/makeORFPredictionData.Rd man/makeTrainingAndPredictionData.Rd man/makeTrainingData.Rd man/matchByTranscript.Rd man/p.Rd man/pcaCAGEValidation.Rd man/perSampleCountPlot.Rd man/predictUorfs.Rd man/predictionVsCageHits.Rd man/readTable.Rd man/removeIDColumns.Rd man/sequenceClassifier.Rd man/startAndStopCodonPlots.Rd man/startCodonMetrics.Rd man/strongCDS.Rd man/subset.ORF.Rd man/tableNotExists.Rd man/test.artificial.Rd man/toGRFromUniqueID.Rd man/trainClassifier.Rd man/validateExperiments.Rd man/validateInputs.Rd man/validateStartCodons.Rd man/varianceTissueUsage.Rd man/venn.diagram.uORFs.Rd man/verification.conf.matrix.Rd man/weakTrailer.Rd