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.
Use of Population frequencies in Contamination Estimation?
I am trying to understand the statistics and methodology behind ContEST.
However, I am not able to understand why Population Frequency is required in the first place. What is the role of HapMap_19_pop_freq.vcf file's role in contamination estimation?
Looking forward to a reply.