Questions tagged [cellranger]

For questions regarding use of the 10X Genomics' "Cell Ranger" analysis tool for the Chromium single-cell sequencing platform.

Filter by
Sorted by
Tagged with
5
votes
1answer
762 views

No counts for added gene in cellranger (scRNA-seq)

I have a set of scRNA-seq samples enriched with FACS for cells expressing a specific gene reporter (TdTomato). In particular the gene I want to report has positive counts in the resulting matrix for ...