Hey galaxy support/any brilliant minds out there, was curious if anyone could help me with a stacks question. With our data, it is being pulled from NCBI, and each individual already has their own SRR, with the data in each being cleaned already (making them not all the same length), with the barcodes removed. Because of this, every time I try running through ustacks or the de novo, it fails, bringing us back to forcing it through process rad tags first. Is there an executive command anywhere for this, to force it through so we can keep going forward, or if galaxy can be built for this in the first place.
Let me know if that all makes sense or I need to clarify! Really appreciate the help
Do we just need to do terminal for this?