Filter vcf file by position AND alternative allele

Question

[_quantum_girl_]

I am filtering a vcf file this way:

bcftools view -R file.pLoF.tsv -Oz -o filtered.pLoF.vcf.gz c12.vcf.gz

However this filters by position, regardless of which ALT allele. How can I enforce this to keep this:

chr12:20875274:G:GT

and leave out this:

chr12:20875274:G:C

Answer 1

[Pierre Lindenbaum]

use bcftools isec