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.
Allelic Coverage Pulldown at genomic loci
Is there a GATK tool that can pull down the allelic coverage at a site in the genome for all alleles? The output format I'm imaging is (A,C,T,G) counts for each genomic loci I specify. Can someone please advise?
Thank you so much.