I’m following along the RNA-Seq reads to counts tutorial with my own data and am up to the Generating a QC Summary Report step.
I’ve followed the instructions (imported the QC report workflow, downloaded the RefSeq BED file) but in the workflow I cannot seem to select my BAM files - it only gives me the option to select MultiQC files.
Any help would be appreciated! Thanks
It is a bit hard to debug for me so I hope someone else can give a better answer . But if I go to the workflow page after getting the workflow I see this:
And after I click “run workflow” I see this:
Do you see the same? Did you used the url to import the workflow?
Hi, thanks for your reply
Yes I see the same there, however my issue is I can’t select any BAM files to enter, it will only let me chose MultiQC files in the drop-down menu
Hi - are you still having this problem?
If so, some items to check:
- The BAM inputs should be in a dataset collection.
- That collection needs to be in the same history where the workflow is launched (the “active” history).
- And, this workflow is run after the completion of the other workflow associated with this tutorial.
If you want to share a link to your tutorial history back, we can help to test more. FAQ sharing-your-history