We've moved!
This site is now read-only. You can find our new documentation site and support forum for posting questions here.
Be sure to read our welcome blog!

Use of Population frequencies in Contamination Estimation?

VaishnaviVaishnavi United StatesMember
edited June 2014 in Ask the GATK team


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.

Thanks, Vaishnavi

Best Answer


Sign In or Register to comment.