Rob Patro

Hi @schelhorn, Sorry for the uncharacteristically slow response on this. We're going full steam ahead for the RECOMB deadline, so I've been less responsive than usual. Anyway, I've invited you...

Hi @schelhorn, Sure, I'll had her now. We'll send you a small write-up about the state of the codebase and how to run the current pipeline next week (once my...

Hi @tetianakh, I've re-sent the invitation. If you don't get it, please send me an e-mail, and I'll reply with the link to join directly.

Great :). I'll have @hiraksarkar write up a brief overview of the current state of the codebase (including which branch contains the latest stuff) this week. We can either share...

If one has a downstream fusion pipeline that uses transcriptome mapping, you can already get those from the -z= option for a while. The real challenge is how to properly...

Thanks for the detailed report! I wonder if we can bump the max version on salmon 1.4.0. I seem to remember icu 67 conflicting with another dependency before. We'll have...

Hi @bumproo and @mmp3, Thanks for raising this issue. So, I _am_ surprised at these particular differences that you found, but the behavior you are observing is consistent with how...

Hi @tamuanand, Yes, we had just about finished up a nice set of features and I thought it would be fun to have another holiday-themed release :). I'm not sure...

@deevdevil88, As an update to this, you can now use the alevin -> [alevin-fry](https://alevin-fry.readthedocs.io/en/latest/) pipeline to quantify with different strategies for filtering. If you're using a technology with an external...

@deevdevil88, Great! Please do let us know if you have any questions or run into any issues when testing it out :).