If you happen to see a question you know the answer to, please do chime in and help your fellow community members. 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.

Questions about calculating the genotype likelihoods

In this website,, you showed the formula used to calculate PL.

I can understand most of the formulas used here. But I can't understand the change on the formula when you are trying to implement G=H1H2 to P(D|G). I tried a lot of times and I cannot finish the math inference on my own. I think the formula you used to calculate P(D|G) should also be available to be generated by pure math deduction.

Therefore, if convenient, would you please show me the process of the math deduction of the formula to prove that P(D|G)=P(D|H1)/2 + P(D|H2)/2 (given a single read sequence).

Thank you!


Sign In or Register to comment.