Parsing the FORMAT field with bcftools

[balsampoplar]

Can someone show me a quick example of how to parse the FORMAT field from a vcf file using bcftools? In particular, I would like to parse out the 'GQ' field from a given vcf file.

I tried the following:
$ bcftools call -f 'FORMAT/GQ' chr1.vcf -o chr1.gq.txt

This reports an error: Could not parse "FORMAT/GQ"

Thanks.

[balsampoplar]

Answering my own question here:

bcftools query -f'%CHROM %POS[ %GQ]\n' chr1.vcf -o chr1.gq.txt

This outputs a matrix of GQ (genotype quality) per site per individual in the text file chr1.gq.txt.