Closed shiro-kur closed 4 months ago
Hi shiro-kur, Yes you can work this out just using the SpliSER process output, although it requires some scripting or work in excel. The key bit of information is in the list of partners for a given site (in column 11). Partner sites will either be all upstream or all downstream of the site. You can then work out whether a site is donor or acceptor in a couple of ways:
If you have stranded data.
If you have a gene annotation.
However this second approach will fail when you have sites within overlapping genes. Whatever you do, look at a few known genes in IGV to sanity-check your results.
Hope this helps! Sorry that I didn't see this sooner, Craig
Hi !
Can I get information on splice donor or acceptor for each splice site from the SpliSER process output?