API for betsig/GeneStructureTools
Tools for spliced gene structure manipulation and analysis
| Global functions | |
|---|---|
| UTR2UTR53 | Man page Source code |
| addIntronInTranscript | Man page Source code |
| addSets | Man page Source code |
| altIntronRmats | Man page Source code |
| altSpliceSiteRmats | Man page Source code |
| alterTranscriptStartEnds | Man page Source code |
| alternativeIntronUsage | Man page Source code |
| annotateEventCoords | Man page Source code |
| annotateGeneModel | Man page Source code |
| annotateOverlapRmats | Man page Source code |
| attrChangeAltSpliced | Man page Source code |
| betweenNumbers | Man page Source code |
| compareContains | Man page Source code |
| coordinates | Man page |
| coordinates,whippetDataSet-method | Man page |
| cumsumANDpad | Man page Source code |
| diffSplicingResults | Man page |
| diffSplicingResults,whippetDataSet-method | Man page |
| duplicateReference | Man page Source code |
| exonsToIntrons | Man page Source code |
| exonsToTranscripts | Man page Source code |
| extractEvent | Man page |
| extractEvent,rmatsDataSet-method | Man page |
| featureTypes | Man page Source code |
| filterIrfEvents | Man page Source code |
| filterRmatsEvents | Man page Source code |
| filterWhippetEvents | Man page Source code |
| findExonContainingTranscripts | Man page Source code |
| findIntronContainingTranscripts | Man page Source code |
| findJunctionPairs | Man page Source code |
| findOverlaps.junc | Man page Source code |
| formatWhippetEvents | Man page Source code |
| getOrfs | Man page Source code |
| getUOrfs | Man page Source code |
| irfDataSet-class | Man page |
| irfResults | Man page |
| irfResults,irfDataSet-method | Man page |
| irfTranscriptChangeSummary | Man page Source code |
| junctions | Man page |
| junctions,whippetDataSet-method | Man page |
| leafcutterIntronsToExons | Man page Source code |
| leafcutterTranscriptChangeSummary | Man page Source code |
| makeGeneModel | Man page Source code |
| makeNewLeafExons | Man page Source code |
| makeNewLeafExonsUnanchored | Man page Source code |
| manualNMD | Source code |
| matrix2combinations | Man page Source code |
| maxLocation | Man page Source code |
| orfDiff | Man page Source code |
| orfSimilarity | Man page Source code |
| overlap2matrix | Man page Source code |
| readCounts | Man page |
| readCounts,whippetDataSet-method | Man page |
| readIrfDataSet | Man page Source code |
| readLeafcutterJunctions | Man page Source code |
| readRmatsDataSet | Man page Source code |
| readWhippetDIFFfiles | Man page Source code |
| readWhippetDataSet | Man page Source code |
| readWhippetJNCfiles | Man page Source code |
| readWhippetPSIfiles | Man page Source code |
| reformatExons | Man page Source code |
| removeDuplicatePairs | Man page Source code |
| removeDuplicateTranscripts | Man page Source code |
| removeExonsBetween | Man page Source code |
| removeSameExon | Man page Source code |
| removeVersion | Man page Source code |
| reorderExonNumbers | Man page Source code |
| replaceJunction | Man page Source code |
| rmatsDataSet-class | Man page |
| rmatsTranscriptChangeSummary | Man page Source code |
| skipExonByJunction | Man page Source code |
| skipExonInTranscript | Man page Source code |
| splitLongExons | Man page Source code |
| transcriptChangeSummary | Man page Source code |
| whippetDataSet-class | Man page |
| whippetTranscriptChangeSummary | Man page Source code |
