Notice:
If you happen to see a question you know the answer to, please do chime in and help your fellow community members. We appreciate your help!

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.

QUAL field value of VCF files after VQSR

EmmaDanEmmaDan ChinaMember

Hi,

I saw "LowQual" in the QUAL field of some records in VCF files which has been VQSR. I wonder whether these records have ever been used in the VQSR. If they have been used in that step, but without tagging something like "VQSRTrancheSNP99.90to100.00", does it mean that they are somehow ok in terms of VQSR?

Thank you!

Emma

Tagged:

Best Answer

Answers

Sign In or Register to comment.