API for Roleren/uORFomePipe
uORF prediction in R
| Global functions | |
|---|---|
| allLeadersSpanningLeader | Man page Source code |
| artificial.from.cds | Man page Source code |
| atlasTissue | Man page Source code |
| checkAndInitPipe | Man page Source code |
| checkBadPred | Source code |
| createCatalogueDB | Man page Source code |
| createDataBase | Man page Source code |
| createGRObjects | Man page Source code |
| createUORFAtlas | Man page Source code |
| createUniqueIDs | Man page Source code |
| deleteDataBase | Man page Source code |
| deleteTable | Man page Source code |
| deleteUorfTables | Man page Source code |
| feature.boxplots | Man page |
| featureAnalysis | Man page Source code |
| findClassificationBoundary | Man page Source code |
| find_uORFome | Man page Source code |
| fixNAandINFTable | Man page Source code |
| forest | Man page Source code |
| getAll | Man page Source code |
| getAllLeaderChanges | Man page |
| getAllORFGeneSymbols | Man page Source code |
| getAllSequenceFeaturesTable | Man page Source code |
| getAllUORFData | Man page Source code |
| getBestIsoformStartCodonCoverage | Man page Source code |
| getBiomartFromOrganism | Man page Source code |
| getCDS | Man page Source code |
| getCDSFiltered | Man page Source code |
| getCDSTraining | Man page Source code |
| getCageTx | Man page Source code |
| getCandidateuORFs | Man page Source code |
| getFasta | Man page Source code |
| getGTF | Man page Source code |
| getGeneralRiboFeatures | Man page Source code |
| getIDColumns | Source code |
| getIDsFromUorfs | Man page Source code |
| getLeaders | Man page Source code |
| getLeadersFromCage | Man page Source code |
| getORFNamesDB | Man page Source code |
| getORFsGoTerms | Man page Source code |
| getSequenceFeatures | Man page Source code |
| getSpecialThreeUTRs | Man page Source code |
| getThreeUTRs | Man page Source code |
| getTissueFromFeatureTable | Man page Source code |
| getTissueTable | Man page Source code |
| getTx | Man page Source code |
| getUorfsInDb | Man page Source code |
| insertTable | Man page Source code |
| leaderCage | Man page Source code |
| linkORFsToTx | Man page Source code |
| listTables | Man page Source code |
| makeCombinedPrediction | Man page Source code |
| makeORFPredictionData | Man page Source code |
| makeTrainingAndPredictionData | Man page Source code |
| makeTrainingData | Man page Source code |
| matchByTranscript | Man page Source code |
| p | Man page |
| pcaCAGEValidation | Man page |
| perSampleCountPlot | Man page Source code |
| predictUorfs | Man page Source code |
| predictionVsCageHits | Man page Source code |
| readTable | Man page Source code |
| removeIDColumns | Man page Source code |
| sequenceClassifier | Man page Source code |
| startAndStopCodonPlots | Man page Source code |
| startCodonMetrics | Man page Source code |
| strongCDS | Man page Source code |
| subset.ORF | Man page Source code |
| tableNotExists | Man page Source code |
| test.artificial | Man page |
| toGRFromUniqueID | Man page Source code |
| trainClassifier | Man page Source code |
| validateExperiments | Man page |
| validateInputs | Man page Source code |
| validateStartCodons | Man page |
| varianceTissueUsage | Man page |
| venn.diagram.uORFs | Man page |
| verification.conf.matrix | Man page |
| weakTrailer | Man page Source code |
