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KvarQ

KvarQ

Performs in silico genotyping for selected loci, e.g., single nucleotid polymorphism and drug resistance.

Topic

Microbiology, Genomics, Sequence assembly, Mapping

Details

  • Operation: Variant calling, Sequence assembly, Mapping, Genotyping
  • Software interface: Command-line interface
  • Language: Python, C
  • Operating system: Linux, Microsoft Windows, Mac OS X
  • License: GNU GPL v3
  • Cost: -
  • Version name: 0.12.2
  • Credit: Steiner A, Stucki D, Coscolla M, Borrell S, Gagneux S.
  • Contact: http://www.swisstph.ch/kvarq
  • Collection: -

Publications

Steiner A, Stucki D, Coscolla M, Borrell S, Gagneux S "KvarQ: targeted and direct variant calling from fastq reads of bacterial genomes." BMC Genomics 2014 https://doi.org/10.1186/1471-2164-15-881
PMID: 25297886
PMCID: PMC4197298


Download and documentation




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