Difference between the different annotation groups available in GATK
Where do I find the meanings of the analysis groups available with GATK(--analysis-group or -G)? Specifically, what is the difference between AlleleSpecificAnnotation and AS_StandardAnnotation. I see this argument come up in multiple tools, including HaplotypeCaller, GenotypeGVCFs, and CombineGVCFs without any explanation of exactly what these annotations include.
Thanks!
-
Thank you for posting on the forum! There are some previous forum questions asking about this and you can see those responses here:
I have put in a request to our documentation team to add a new article on this topic. Please let me know if you have any remaining questions after you take a look.
Best,
Genevieve
Please sign in to leave a comment.
1 comment