Hi @bellez34r3
Great, thank you!
To help a bit with this, I also tried to run the tutorial data through the workflow and discovered a tiny wrinkle… the input data and workflow are not a perfect match, and a small adjustment is needed. This issue ticket contains all of the details → Suggested update to workflow for differential-isoform-expression · Issue #5208 · galaxyproject/training-material · GitHub. Followup about this proposed change will post back there.
Update: A history with the tutorial completed is here (uses the modified workflow) https://usegalaxy.eu/u/jenj/h/genome-wide-alternative-splicing-analysis-human-modified-for-gtn
The basic analysis steps are unchanged, and valid, if you refer to the hands-on portion of the tutorial. And, if you want to use the tutorial’s workflow for some other reason – edit away! You would need to make changes to handle your own collections anyway.