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 there any way to generate interval list from available exome data?

snijeshsnijesh hosurMember
edited September 2017 in Ask the GATK team

Hi all,
I am following the "best practice" suggested by broad institute to call variants from whole exome sequencing data. Currently, I am using Mutect2 to call variants from tumor sample and normal sample based on latest reference genome GRCh38. But, I don't have interval list to use -L option. Is there any way to generate interval list from exome sample which I have? or Is there any default interval list for exome data?
Thank You

Answers

Sign In or Register to comment.