How to get population specific SNPs from a vcf file

Question

[291796256]

I've got a vcf file and There are 500 individuals in it.Of these 500 individuals, 30 individuals form group A.How can i get all SNPs specific to GroupA (Present in at least one of the 30 individuals and not in the remaining 470).

Looking forward to your answer.

Think you

Answer 1

[Pierre Lindenbaum]

bcftools view --samples-file list-in-groupA.txt -O u in.vcf | bcftools view -i 'AC>0'