We’re moving the GATK website, docs and forum to a new platform. Read the full story and breakdown of key changes on this blog.
If you happen to see a question you know the answer to, please do chime in and help your fellow community members. We encourage our fourm members to be more involved, jump in and help out your fellow researchers with their questions. GATK forum is a community forum and helping each other with using GATK tools and research is the cornerstone of our success as a genomics research community.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.
Leishmania has 36 chromosomes but their copy number is unpredictable for each strain and chromosome copy number can change very quickly. So what is an optimal ploidy setting for organisms with extensive aneuploidy? So far we use just diploid setting. Some samples have consistently more heterozygous SNPs in higher copy chromosomes but this relationship does not hold in many other samples: there is no strong correlation between chromosome copy number and abundance of heterozygous SNPs.