Error in running VQSR
I used a cohort in HC and VQSR. Each of my cohort contains 50 reduced bam files. The HC step is OK. But I got errors in two cohorts:
VariantRecalibration gives the following error for cohort 1:
"Bad input: Values for MQRankSum annotation not detected for ANY training variant in the input callset."
In a separate running using cohort 2, VariantRecalibration gives the following error:
"Bad input: Found annotations with zero variance. They must be excluded before proceeding."
Could anyone help?
Thanks a lot!