Hi! I am back again with another kissplice related question.
I ran kissplice successfully. The program identified approx 64,000 snps (0a.fa) and approx 1800 alternative splicing events (1.fa). I mapped both files with STAR and then used kissplice2refgenome. I did not get any error notices, as far as I know my kissplice2refgenome runs were successful, but the output files is empty. I see the column headings, but nothing annotated/mapped. All of my snps were in the notmappedreads file. Any recommendations for trouble shooting?
Thank you in advance! Audra