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varscan

Version:
2.4.3
Identifier: TL_6518d5.7a
Tool
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Description


VarScan, an open source tool for variant detection that is compatible with several short read align-ers.

Subtools

  • varscan mpileup2indel

    identify indels in a pileup file

  • varscan somatic

    call somatic mutations

Author(s)

  • Dan Koboldt

Code Repository

  • https://github.com/dkoboldt/varscan

Links

  • http://dkoboldt.github.io/varscan/

  • http://dkoboldt.github.io/varscan/using-varscan.html

Tags

Sequencing
DNA polymorphism
Variant calling

Biostars

  • How to pipe samtools mileup with varscan trio caller?
  • Calling triovariants using varscan from a compressed mileup file ?
  • Non-cancer somatic mutation calling
  • Varscan Copy Number Alterration Caller, Number Of Markers
  • Varscan: Variant Detection In Massively Parallel Sequencing Data
  • Problem generating Varscn2 copynumber output
  • Variant Calling in Low-Complexity Regions
  • Variant Calling in Somatic mode
  • Varscan Filters Not Being Applied
  • Questions About Mergesegment.Pl
  • Varscan Copy Number Calling Workflow: Using Mergesegments.Pl After Cbc
  • Running THetA2 with Varscan input?
  • VarScan and Samtools - how to process my data?
  • Gold Standard for Human cancer exome sequencing
  • Varscan Snp Strand Information
  • Problem Analyzing Tumor-Normal Pairs With Varscan
  • Comparative Snp Analysis
  • Varscan, Using The Copycaller
  • Confusion with Varscan somatic filters
  • Varscan Error In Pileup2Snp
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