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.
burden test/SKAT on exome study without control
We have access to exome-sequencing data from an independent set of leukemic samples from a mouse model with an induced oncogene. However, these samples do not have an associated paired (normal) control. I should come up with a pipeline for how to try to identify mutations in the absence of such paired/normal controls
I read that when we have no control in exome-seq, we should use something like 1000 genome as control and performing statistical test. if prioritization of sequence variants by tools like TAPER, PhenIX, Exomiser, FAVR, VAAST, etc, means the same and compensate for lack of controls??