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Varscan

Varscan

command

  • VarScan.v2.2.8.jar
  • VarScan.v2.2.jar, VarScan.v2.1.jar

Varscan


VarScan is a platform-independent, technology-independent software tool for identifying SNPs and indels in massively parallel sequencing of individual and pooled samples. Given data for a single sample, VarScan identifies and filters germline variants based on read counts, base quality, and allele frequencyh. Given data for a tumor-normal pair, VarScan also determines the somatic status of each variant (Germline, Somatic, or LOH) by comparing read counts between samples.


Access mode(s):

Command line on saruman.versailles.inra.fr

Keyword(s):

identification SNP indels suite software

Update: 16 Feb 2012
Creation date: 14 Oct 2011