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.

Is it possible to recalculate QUAL on a subset of samples?

I have a joint-called VCF of 100s of samples in different pedigrees. For my analysis, I have to split the joint VCF into pedigrees. However, I would like to recalculate the QUAL scores for the pedigree VCFs.

I have GL/PL values and all other metrics GATK (v3) VQSR outputs. With these data, is it possible to recalculate QUAL for families that were joint called in a larger VCF?



Sign In or Register to comment.