single-cell-genetics/cellsnp-lite

Barcodes File Clarification

DarioS opened this issue · 3 comments

DarioS commented

In the documentation, I see -b $BARCODE but it doesn't explain what is required file format nor where to download it for Chromium.

hxj5 commented

Hi, -b requires a file listing cell barcodes, one barcode per line. You may use the barcodes.tsv file in the output directory of 10x CellRanger, outs/filtered_gene_bc_matrices/.

DarioS commented

That's useful to know. Could you add it to the user manual so that it also helps others with the same confusion?

hxj5 commented

yes sure, thanks for your suggestion.

EDIT: commit be55773