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.
Where can I get .interval_list file?
I am using one of the 1000 Genomes exome data (*.bam format) which is called NA12892, aligned to the GRCh37 build. And I just started to use IndelRealigner tool which requires proper *.interval_list file to work.
However, I am unable to find/generate *.interval_list file compatible with my data. Where can I download/generate *.interval_list (or *.bed) file that are compatible with exome data?
Normally, these files are provided by producers for Library Prep. kits (e.g illumina). But, I couldn't find which interval file should be used in 1000 Genomes data.