Skip to content

MuTect2

Description

MuTect2 is a somatic variant calling pipeline used in GDC whole exome sequencing (WXS) and targeted sequencing harmonization.

Overview

MuTect2 is one of the four pipelines used for WXS and targeted sequencing somatic variant calling at the GDC. Somatic variant calling is performed with MuTect2 using tumor and normal alignments and generates single-nucleotide polymorphism (SNP) data.

Input

  • Tumor BAM - WXS or Targeted Sequencing
  • Normal BAM - WXS or Targeted Sequencing

Output

  • VCF (Data Type: Raw Simple Somatic Mutation)

References

  1. MuTect2 Command Line Parameters at the GDC
  2. DNA Seq Processing at the GDC

Categories: Workflow Type