The current GATK version is 3.7-0
Examples: Monday, today, last week, Mar 26, 3/26/04

Howdy, Stranger!

It looks like you're new here. If you want to get involved, click one of these buttons!

Powered by Vanilla. Made with Bootstrap.
GATK 3.7 is here! Be sure to read the Version Highlights and optionally the full Release Notes.
Register now for the upcoming GATK Best Practices workshop, Feb 20-22 in Leuven, Belgium. Open to all comers! More info and signup at


trgalltrgall Member Posts: 13

When using GENOTYPE_GIVEN_ALLELES with HaplotypeCaller, which uses EMIT_ALL_SITES and so has many calls where the entire cohort is nonvariant, do these reference only sites have to be filtered out before calling VQSR?



Sign In or Register to comment.