Entering edit mode
21 months ago
Fatemeh Nabizadeh
▴
10
Hello
I am dealing with the whole exome data, and want to filter out the variants whose depth of coverage for alt divided to ref allele (alt/ref) is less than or equal to 30%.
This is what the .tsv file looks like:
chr1 45797228 45797228 C T PASS het 68 13.77 60.00 99 68 944,0,1119 **37,31** 1 exonic ...............................
Column 14 ("37,31") is the column of my interest.
37: depth of coverage for ref allele,
31: depth of coverage for alt allele
Would you please help me with how to do that? I'm working with Linux, and need something like an awk command.