Man pages for zhushijia/STAR2bSMRT
STARlong and STARshort based Single Molecule Real Time Iso-Seq analysis
| generateCorrectedIsoform | generateCorrectedIsoform generates the corrected isoforms... |
| generateSeq | generateSeq generate the isoform sequence from the isoform... |
| getJuncBySam | getJuncBySam |
| getJuncBySJout | getJuncBySJout |
| getLRinfo | getLRinfo get the information for each long read |
| getReadByJI | getReadByJI get the long read information from JI tag in sam... |
| gridSearch | gridSearch perform grid searching for the best parameter... |
| isoseqId | isoseqId |
| juncToExon | juncToExon |
| kallistoQuant | kallistoQuant perform the kallisto transcript quantification |
| matchGff | matchGff finds the correspondence between two gffs |
| matchLSjunc | matchLSjunc match the junction site between long reads and... |
| matchLSjuncOneChr | matchLSjuncOneChr |
| parseCigar | parseCigar |
| phqvExp | phqvExp |
| readGff | readGff for reading isoform gff file |
| runSH | runSH run the bash command line |
| salmonQuant | salmonQuant perform the salmon transcript quantification |
| splitSmrtcell | splitSmrtcell |
| STAR2bSMRT | STAR2bSMRT |
| STAR2bSMRT_NRXN | STAR2bSMRT_NRXN the main function of STAR2bSMRT specially... |
| starLong | starLong run the STARlong mapping |
| starShort | starShort run the STARshort mapping |
| unionGff | unionGff unions two isoform gff files |
| vennDiagramGff | vennDiagramGff draw the venn diagram of a list of gffs |
| writeGff | writeGff write out the gff file of isoforms |
