stats file in Mutect2 calling
Hi,
I'm performing somatic variant calling with Mutect2. However, besides the *.vcf file, the stats file is not generated.
The Genome Analysis Toolkit (GATK) v4.1.2.0 HTSJDK Version: 2.19.0 Picard Version: 2.19.0
gatk Mutect2 -R hg38.fa -I normal.bam --normal normal -I tumour.bam --tumor tumour -O results/mutect/summary.vcf
Where is my mistake? How can I force to generate stats file?
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aldhairmedico •
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dentepre •
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dentepre •
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Hello,
I also encountered the same problem. Were you able to resolve this?
If someone can help please.
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vipulbhatia24 •
This thread may be useful for you: https://gatk.broadinstitute.org/hc/en-us/community/posts/360068479891-Mutect2-doesn-t-produce-stats-file
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aldhairmedico •
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