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DiscoSnp

DiscoSnp

Software tools to detect single nucleotide polymorphism (SNP) and insertions and deletions (indels) without the need of a reference sequence.
Additional names: DiscoSnp++, DiscoSnpRad.

Topic

DNA polymorphism; Sequencing; Genetics; Genetic variation

Details

  • Operation: SNP detection
  • Software interface: Command-line user interface
  • Language: C++
  • Operating system: Linux; MAC OS X
  • License: GNU Affero General Public License v3.0
  • Cost: Free
  • Version name: 2.2.10
  • Maturity: Stable
  • Credit: French ANR-12-BS02-0008 Colib'read project; SOFIPROTEOL under the FASO (Le Fonds dAction Stratégique des Oléoprotéagineux) project ‘PEAPOL’.
  • Contact: pierre.peterlongo _at_ inria.fr
  • Collection: -

Publications

Uricaru R, Rizk G, Lacroix V, Quillery E, Plantard O, Chikhi R, Lemaitre C, Peterlongo P "Reference-free detection of isolated SNPs." Nucleic Acids Res. 2015 Jan;43(2):e11. 17. https://doi.org/10.1093/nar/gku1187
PMID: 25404127
PMCID: PMC4333369


Pierre Peterlongo, Chloé Riou, Erwan Drezen "DiscoSnp++: de novo detection of small variants from raw unassembled read set(s)" bioRxiv 209965 https://doi.org/10.1101/209965


Jèrèmy Gauthier, Charlotte Mouden, Tomasz Suchan, Nadir Alvarez, Nils Arrigo, Chloé Riou, Claire Lemaitre, Pierre Peterlongo "DiscoSnp-RAD: de novo detection of small variants for population genomics" bioRxiv 216747 https://doi.org/10.1101/216747


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