Rob Patro

Hi @ardecasien, Thanks for the question. Let me see if I understand your usecase. You have separate technical replicates. Each replicate has a list of valid barcodes, and you'd like...

Thanks, @crazyhottommy! @DongzeHE : We should figure out the best way to add this information to the documentation — something like a table of protocols with notes or some such.

Hi guys, I'm certainly open to adding this type of thing if there's sufficient desire for it. I agree with @vals that making umi tags compatible with a data generation...

Hi all, I'm just chiming in here to say that we are _definitely_ interested in supporting scRNA-seq data "out of the box". At this point, it's really just a matter...

Hi @davismcc, Yes; this is very high-up on our to-do list. Right now, we are primarily limited by people (students and myself) able to actually hack away on the codebase....

Hi @mdshw5, @k3yavi was originally developing the barcode algorithm in a separate repo, but all of this work has been merged into the salmon repo now. The new `alevin` command...

Hi @ATpoint, I agree that support for this seems like it will be really useful (and important) at this point. @DongzeHE: Can we investigate the protocol and see what we'd...

Hi @ljudevitluka, Thanks for the question! What is your intended workflow? I think there may be a slight disconnect between the intended usage of `expect-cells` and your understanding. In general...

> Hi, with the help of Rob I managed to get a Rust BD Rhapsody analysis tool to work (https://github.com/stela2502/Rustody). Awesome! Regarding the actual feature request, could I ask for...

Hi @jashapiro, Is your use-case for single-cell transcriptomics? We are currently working on a "general" solution to such problems — with increasingly complicated barcoding mechanisms. Currently the `simpleaf` -> `alevin-fry`...