Open matmu opened 12 months ago
I used the genome instead of the transcriptome reference. My fault.
The error persists the transcriptome reference.
Hi,
Sorry for the slow reply! I have not validated or intended use of BAMboozle for alignments to transcriptome, sounds like there is an issue with reads sitting on the ends of transcript potentially with some clipping or indel resolving that fails. I'm assuming this is some type of RNA-seq samples, could you consider using a spliced genome aligner such as STAR?
When I run BAMboozle 0.5.0 on BAM files generated with Salmon 1.6.0, I get the following error message:
Not sure if this a bug or if is BAMboozle not applicable to BAM files created by Salmon. Thanks a lot for your help.