Region-level quantifications

[tohein]

Hi,

is there currently a way to quantify allele-specific counts at the level of genomic regions rather than individual SNVs? If not, would you consider adding such a feature to a future version of cellSNP?

Thanks a lot! Tobias

[hxj5]

Hi Tobias,

It's a good question. You may want to read the Methods part in the CHISEL paper and if it's what you want, cellSNP could be used as a preprocessing (pileup/genotyping) tool for the CHISEL method.

Best Xianjie