Daniel C. Jones
Daniel C. Jones
Cool :+1: I should probably put this in metadata now that a few people are using it.
If anyone's feeling adventurous, the `mdjl` branch has a pure julia version using Base.Markdown (no pandoc required). I'm going to merge that eventually then publish on metadata. If you let...
This error is due to a transcript in your gtf file being on the "GL456210.1" sequence, which is an unplaced contig in the m10 assembly, but that sequence not being...
Adding support for CSFASTQ wouldn't be hard at all. So far I haven't bothered since I personally don't work with colorspace data much, and no one has asked me to...
Ok, I see. If it's just a simple well-documented hdf5 schema, then it shouldn't be too hard.
That's not terribly hard to implement, whether it be by using SAM's special read trick or a separate mechanism. I'll try to get this in the next version.
Thanks! It's tricky to add support directly to proseg, because h5ad is a pretty complex format, but I ought to include python code to do this in the future. In...
Hi Gordon, This seems that no transcripts were read for some reason. I'm not sure what's going on here, but can you confirm that the `cell_ID` column has some non-zero...
Each of these reported errors is due to no transcripts being read by proseg, but I've not been able suss out where the loss might be occurring, and haven't been...
I just release version 1.1.5 which I believe fixes this issue. Thanks for your patience, and thanks to @dbuszta for sharing a dataset to reproduce the issue.