Kristoffer Vitting-Seerup

It would also be useful for cases where the cell-type distribution between samples are very skewed. Unfortunately I have just experienced removing a lot of my signal of interest even...

Could you post the fist 6-10 couple of Lines from a result file?

Sorry for the late answer. I must admit I don't have a good solution for StringTie-based results. Tbh, I've started recommending quantifying the stringtie-defined transcripts with another tool that actually...

@parsboy66 please make a new issue as your problem is different from the original post. It will be a lot easier for people looking for answers to their problem if...

@tfccruz I think your problem was to lenient filtering before running sva - I've made some updates to fix it. Please try IsoformSwitchAnalyzeR 2.1.8 from the GitHib (remember to restart...

Could you highlight the problematic exon?

Yep. That is automativally handled by all plot functions except the switchPlot 😊 man. 3. apr. 2023 kl. 18.14 skrev Little Fish (Yu) ***@***.*** >: > — > Reply to...

That should work just fine. In fact that is the preferred data to work with 😊 ons. 12. apr. 2023 kl. 09.31 skrev Little Fish (Yu) < ***@***.***>: > hi,...

I think this has been fixed? Which version of IsoformSwitchAnalyzeR are you running?

Sounds strange. What do you get when running: `packageVersion('IsoformSwitchAnalyzeR')`? Also could you post the first couple of lines of the output from `pfam_scan.pl`?