API for pram
Pooling RNA-seq datasets for assembling transcript models
| Global functions | |
|---|---|
| addOri | Source code |
| buildModel | Man page Source code |
| calFp4Jnc | Source code |
| calTpFn4Jnc | Source code |
| convertOri2Strand | Source code |
| convertStrand2Ori | Source code |
| createTmpdir | Source code |
| defIgRanges | Man page Source code |
| evalMdlExonNuc | Source code |
| evalMdlJnc | Source code |
| evalModel | Man page |
| evalModel,GRanges,GRanges-method | Man page |
| evalModel,character,character-method | Man page |
| evalModel,character,data.table-method | Man page |
| evalModel,data.table,data.table-method | Man page |
| evalModelByTr | Source code |
| extractBam | Source code |
| fileExists | Source code |
| filterBamByChromOri | Source code |
| findMdlTrOLTgtTr | Source code |
| findModelJncInTarget | Source code |
| findTargetJncInModel | Source code |
| genBamChromOri | Source code |
| getChromGRanges | Source code |
| getDTFromGTFFile | Source code |
| getOS | Source code |
| getTrFromExon | Source code |
| getTrJncFromExon | Source code |
| getUniChromOriDt | Source code |
| prepIgBam | Man page Source code |
| readChromSize | Source code |
| runPRAM | Man page Source code |
| selAlnByMateMaxNDup | Source code |
| selAlnInGRanges | Source code |
| selModel | Man page Source code |
| splitUserBamByChromOri | Source code |
| splitUserBams | Source code |
| writeDT2GTFFile | Source code |
