How to Run a Somatic Variant Calling Pipeline on Your Own Sequencing Data
A working pipeline for calling somatic SNVs and indels with GATK Mutect2, from BAM to annotated VCF. Covers results at low variant allele fraction.
Tag: mutect2
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A working pipeline for calling somatic SNVs and indels with GATK Mutect2, from BAM to annotated VCF. Covers results at low variant allele fraction.