Rob Patro

cc @noahcape & @Daniel-Liu-c0deb0t: Could this modern BD Rhapsody data be a usecase for `seqproc`+`ANTISEQUENCE`? Can we see what would be required to perform this transformation?

Hi @jeremymsimon, I think this is something that we do want to support. Are you familiar with the protocol and what types of changes / additions might need to be...

It looks like you don't have enough ram to run this test.

Hi @charlesfoster, Thanks for opening the issue. The second run looks like it ends before there is any information about mapped reads. Have mappings started to be reported at that...

Hi Charles, Thanks for the super-detailed response! This behavior is very interesting indeed. I still think having the ability to look at the reads might be useful. You could share...

Hi @Eloitor, I've also noticed that I can't properly enter math mode in the references as I would if typesetting with standard LaTeX. However, as to your second issue, it's...

These are classical signs that you are I/O bound. That is, scaling beyond 13 threads isn't helping because `minimap2` cannot consume the input data fast enough to make use of...

Hi Duc, There are several things you might do to try and speed things up. One thing you might try to do is to put the output on a different...

Hi @gpertea, One thought about losing reads to the decoys in this case is that the default strategy is to assign as decoy any read that maps strictly better to...

Thanks for pinging on this — I'll poke the model implementor (@gmarcais) via other channels and get back to you as soon as I can.