Hi,

I'm annotating a vcf and have done this successfully in the past but I'm curious whether I can add a custom annotation in the FORMAT field rather than the INFO field.

cat file.vcf | vcf-annotate -a annotation.gz -d key=FORMAT,ID=anno,Number=.,Type=String,Description='custom annotation'  -c CHROM,FROM,TO,FORMAT/anno >  new.vcf

That is, where the GT:PL:GL information is usually.

Or can't this be done? The above code does not work. Though does work when you swap FORMAT with INFO.

Thanks!