Test-drive the GATK tools and Best Practices pipelines on Terra
Check out this blog post to learn how you can get started with GATK and try out the pipelines in preconfigured workspaces (with a user-friendly interface!) without having to install anything.
Does setting the -out_mode flag in UnifiedGenotyper differently has different effect when doing VQSR
Does VQSR behave differently when the
-out_mode flag in UnifiedGenotyper is set to
EMIT_VARIANTS_ONLY as compared to
EMIT_ALL_CONFIDENT_SITES. I think by using
EMIT_ALL_CONFIDENT_SITES we might give VQSR more information to train the model, but I may be wrong. Can someone please help me with this ? Thanks.