QUAL field during g.vcf combining

Hail Query & hailctl
1

Hi,
I have simple question: Is it possible to force the QUAL field from a gvcf file to be loaded by vds.combiner? This value would be useful for calculating various fields required by VQSR (at later stages of analysis - after combining gvcf files).

Best regards,
PW

2

It’s not possible at current.

For variants, QUAL and PL[0] are approximately the same value. Could you use LPL[0] for an approximate qual for your purposes?