Description

VarScan2 is a tool for variant detection in massively parallel sequencing data. It can detect SNPs, indels, and copy number variations in both somatic and germline samples. It is particularly useful for analyzing tumor/normal sample pairs. This subtool divides variants based on status (germline, somatic, loss of heterozygosity) and confidence level (high-confidence or not) and outputs them in separate VCF files.

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Tools

varscan Documentation

variant detection in massively parallel sequencing data

https://github.com/dkoboldt/varscandoi: 10.1101/gr.129684.111License: The Non-Profit Open Software License version 3.0 (NPOSL-3.0)
Authors