cellsnp-lite on data from 1 donor

[astaburuaga-garcia]

Hi, I have one bam/barcode file per donor (cell line), and I want to get SNPs from each donor, to then be able to identify the donors in a bam/barcode file where they where multiplexed. Does it make sense to run cellsnp-lite per each donor to identify their SNPs, then merge their vcf files for vireo?

[hxj5]

Yes, you may genotype per donor and then combine the donor-wise VCF files for vireo (see issue 100 for detailed discussion).

[astaburuaga-garcia]

Perfect, thanks!