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.
how to choose sequencing depth for FFPE and cfDNA tumor sample for MuTect2 ?
I am doing target panel sequencing for tumor research . now I have the following questions.
for FFPE tumor sample , what's sequencing depth is suifable for M2 calling ？
and for cfDNA tumor sample ?
and for tissue ?
if normal sample is cell type , so how sequencing depth is suitable for M2 ?
maybe I should consider 'average depth within target region ' but 'sequencing depth ' ??
I do not know how to choose suitable tumor depth and normal depth to use M2