I am working on a project where long read sequencing was done using PacBio for a virus genome. I aligned the reads using minimap2, a splice aware aligner and can see splices when I view the bam files on IGV.
Now, I am trying to explore these results further by trying to generate figures showing the splicing events, sashimi plots, psi scores, etc.
I tried MISO but for some reason, am not able to get it working.
Are there any tools/ methods you can suggest?