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SNPTEST

SNPTEST

SNPTEST is a tool to analyze a single SNP association in genome-wide association studies (GWAS). The SNPTEST algorithm includes functions for case-control phenotypes, single and multiple quantitative phenotypes Bayesian, Frequentist tests, condition using an arbitrary set of covariates and/or SNPs, and several methods for imputed SNPs.

Topic

GWAS study

Details

  • Operation: Mapping
  • Software interface: Command-line user interface
  • Language: Javascript;C++
  • Operating system: Linux; Mac OS X
  • License: Other
  • Cost: Free
  • Version name: v2.5.4-beta3, v2.5.2 (stable)
  • Maturity: Stable
  • Credit: Medical Research Council, United Kingdom.
  • Contact: OXSTATGEN _at_ JISCMAIL.AC.UK
  • Collection: -

Publications

Marchini J, Howie B "Genotype imputation for genome-wide association studies." Nat Rev Genet. 2010 Jul;11(7):499-511. https://doi.org/10.1038/nrg2796
PMID: 20517342


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