Question: stats file in Mutect2 calling
gravatar for dentepre
12 weeks ago by
dentepre0 wrote:


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?

gatk • 202 views
ADD COMMENTlink modified 19 days ago by vipulbhatia240 • written 12 weeks ago by dentepre0
gravatar for vipulbhatia24
19 days ago by
vipulbhatia240 wrote:


I also encountered the same problem. Were you able to resolve this?

If someone can help please.

ADD COMMENTlink written 19 days ago by vipulbhatia240
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