VarScan

A tool to detect sequence variants using heuristics / statistics accoring to set thresholds.

Topic

Sequencing, DNA polymorphism

Detail

  • Operation: Varian calling

  • Software interface: Command-line interface

  • Language: Java

  • License: -

  • Cost: Free

  • Version name: -

  • Credit: Koboldt DC, Chen K, Wylie T, Larson DE, McLellan MD, Mardis ER, Weinstock GM, Wilson RK, Ding L.

  • Input: -

  • Output: -

  • Contact: https://sourceforge.net/p/varscan/discussion/1073559

  • Collection: -

  • Maturity: -

Publications

  • VarScan: variant detection in massively parallel sequencing of individual and pooled samples.
  • Koboldt DC, et al. VarScan: variant detection in massively parallel sequencing of individual and pooled samples. VarScan: variant detection in massively parallel sequencing of individual and pooled samples. 2009; 25:2283-5. doi: 10.1093/bioinformatics/btp373
  • https://doi.org/10.1093/bioinformatics/btp373
  • PMID: 19542151
  • PMC: PMC2734323

Download and documentation

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