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A tool to detect single nucleotide polymorphism (SNP) in Illumina sequence data from population samples. The SNIP-Seq algorithm uses quality values of the sequenced bases and iterative estimates of genotypes and error rates based on multiple individuals.


Population genetics; DNA polymorphism


  • Operation: SNP detection
  • Software interface: Command-line user interface
  • Language: Python
  • License: Not stated
  • Cost: Free
  • Version name: -
  • Maturity: Legacy
  • Credit: This work was supported by Scripps Genomic Medicine and the Scripps Translational Science Institute under the Clinical Translational Science Award (NIH U54RR02504-01).
  • Contact: vbansal _at_
  • Collection: -


Bansal V, Harismendy O, Tewhey R, Murray SS, Schork NJ, Topol EJ, Frazer KA "Accurate detection and genotyping of SNPs utilizing population sequencing data." Genome Res. 2010 Apr;20(4):537-45.
PMID: 20150320
PMCID: PMC2847757

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