You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
A user reported that CalculateGenotypePosteriors generated a bunch of "new" variants (https://gatkforums.broadinstitute.org/gatk/discussion/comment/56226). What happened was that no-calls that look like GT:AD:DP:GQ:PL ./.:0,0:0:.:0,0,0 became GT:AD:DP:GQ:PL:PP 0/1:0,0:0:,:30,0,30 or similar when a high AF prior was applied. The expected behavior is for PPs to not be applied and the GT to remain no-call.
The text was updated successfully, but these errors were encountered:
A user reported that CalculateGenotypePosteriors generated a bunch of "new" variants (https://gatkforums.broadinstitute.org/gatk/discussion/comment/56226). What happened was that no-calls that look like
GT:AD:DP:GQ:PL ./.:0,0:0:.:0,0,0
becameGT:AD:DP:GQ:PL:PP 0/1:0,0:0:,:30,0,30
or similar when a high AF prior was applied. The expected behavior is for PPs to not be applied and the GT to remain no-call.The text was updated successfully, but these errors were encountered: