Can you please provide
a) GATK version used : 188.8.131.52
b) Exact GATK commands used: gatk Mutect2 -R $ref -I tumor.bam -O unfiltered.vcf
In this article (Mutect2)
gatk Mutect2 -R $ref -I tumor.bam -O unfiltered.vcf
this command does not include normal.bam. is it right command for somatic mutation?
i don't have panel of normal. for making panel of normal there are some recommendation like no tumor, blood, at least 40 samples number.
How can i do Mutect2?
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