vcftools is really good at extracting some information from vcf files.
However, I have some missing information in the output file when I try this:
vcftools --vcf my.vcf --get-INFO AF --out my.out.vcf
my.out should keep "ID" field (rsID) as in the original my.vcf, but it doesn't.
Is there any vcftools option or other ways to keep ID in the result vcf?
I've cosulted many documentations but no one can answer it.
Thanks in advance.