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Build a panel of normal for Mutect
I am trying to build a panel of normal for Mutect. After a deep investigation on internet I could not find anything more specific that this:
"ran MuTect on a set of normal samples as if they were tumor samples without a matched normal sample in STD mode. From these data, a VCF file is created for the sites that were identified as variant by MuTect in more than one normal sample." (from appistry.com/2013/qa-from-the-cancer-genome-analysis-suite-webinar/).
The sentence "From these data, a VCF file is created" is not self explanatory.
Could someone please indicate clearly the command line(s) needed for this procedure? Including (for example) 4 normal samples.
This think this will be extremely useful for the whole community.
Thanks a lot,
Bioinformatician at The University of Melbourne
Royal Melbourne Hospital