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.

Recommendation Interval length for genomicsdb import

Dear GATK Team

Is there any recommendations for the length of one interval specified in genomicsdb import?
I am running a genomicsdb import for about 50 bam samples (from cattles) for whole length of chromosome 20 (length:72042655) and it takes forever to run and after finished and joinly genotyped it also doesnot really work (progress meter does not run).

I use gatk3 on the same data and it runs without any problems. I inputted all sample gvcf and genotype gvcfs on interval of chromosome 20.

Regards

Any helps will be much appreciated.

Answers

Sign In or Register to comment.