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!

Picking a VQSR tranche for indels

gtiaogtiao Cambridge, MAMember

Hi,

Given that there's no tranche plot generated for indels using VariantRecalibrator, how do we assess which tranche to pick for the next step, ApplyRecalibration? On SNP mode, I'm using tranche plots to evaluate the tradeoff between true and false positive rates at various tranche levels, but that's not possible with indels.

Thanks!

Grace

Best Answer

Answers

Sign In or Register to comment.