Simple question, I've searched the web for it but found no clear answer. How/where do you get Panel Of Normal files for different kits to use in GATK Mutect2 analysis?
Thank you very much in advance for any help!
A Panel of Normal or PON is a type of resource used in somatic variant analysis. Depending on the type of variant you're looking for, the PON will be generated differently. What all PONs have in common is that (1) they are made from normal samples (in this context, "normal" means derived from healthy tissue that is believed to not have any somatic alterations) and (2) their main purpose is to capture recurrent technical artifacts in order to improve the results of the variant calling analysis.
https://gatk.broadinstitute.org/hc/en-us/articles/360035890631-Panel-of-Normals-PON-
So, I think you can make it handmade
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version 2.3.6
https://gatk.broadinstitute.org/hc/en-us/articles/360035531092#2 It can be useful