Converting cellsnp-lite outputs to vartrix's consensus matrix

[mdmanurung]

Dear author,

Could you give a pointer on how to construct vartrix's consensus matrix given the outputs from the cellsnp-lite? Is it possible?

Thanks in advance!

[hxj5]

Hi, thanks for the question. I am not quite familiar with vartrix's consensus matrix. Please correct me if my understanding is wrong. I assume it is generated by the consensus mode of the --scoring-method (-s) option. It seems possible to convert the cellsnp outputs based on vatrix's scoring rules. You may try using the functions in the notebook "scripts/post_hoc/subset_with_minAD_issue108.ipynb" to help load and save cellsnp output.