Dear team,
For the processed single-cell RNAseq dataset in syn51123521, the count matrix is a gene*cells matrix. Is there a similar dataset for transcript*cell matrix that is available?
Thanks in advance.
Best regards,
Rajesh
Created by rrajesh Hi @rrajesh,
I don't know if still relevant but we did not compute a transcript-by-cell matrix per se.
We used the CellRanger counts to obtain these count matrices (and then removed background RNA noise using CellBender).
I say per se because when using the CellRanger we provided the predefined transcriptome of 2020-A (https://www.10xgenomics.com/support/software/cell-ranger/latest/release-notes/cr-reference-release-notes#2020-a) which has annotations that are not only of genes.
Best,
Gilad Green Hi Jessica, This was not addressed I believe. Best regards, Hello @rrajesh
I see that you added this discussion post a while ago and I wanted to see if this is still an open question of if this was resolved outside of the discussion forum. My sincere apologies if your question was missed and never resolved! Please let us know if you still have questions or need support.
Best, Jessica