to address later: do we want this function to output different versions of the matrix based on the functional impact?

Snitkin-Lab-Umich / scripts

Frequently used Scripts

2 stars 1 forks source link

to address later: do we want this function to output different versions of the matrix based on the functional impact? #12

Open sthiede opened 5 years ago

sthiede commented 5 years ago

like a nonsynonymous snp matrix, a deleterious snp matrix, etc for downstream analysis? https://github.com/Snitkin-Lab-Umich/scripts/blob/0e50918cda987e34ea962951885154c6947b42b5/variant_parser_functions.R#L1

zenalapp commented 5 years ago

This could be useful. One thing to consider is how tailored this will be to each analysis. I think in general it's probably pretty similar but we may want to include options for what to do with low MQ (and maybe low FQ) variants.