IMPUTE2

IMPUTE2 is a tool for genotype imputation and haplotype phasing. The IMPUTE2 algorithm uses 'pre-phasing' wherein it makes initial statistical estimates of the haplotypes. In the next step, it imputes missing genotypes given the estimated haplotypes. This approach yields reduced computing time.

Topic

Population genetics

Detail

  • Operation: Phasing;imputation

  • Software interface: Command-line user interface

  • Language: Perl

  • License: GNU General Public License v3

  • Cost: -

  • Version name: 2.3.2

  • Credit: The National Human Genome Research Institute (NHGRI), United Kingdom Medical Research Council, The National Institutes of Health (NIH)

  • Input: -

  • Output: -

  • Contact: Gonçalo R. Abecasis goncalo@umich.edu | Jonathan Marchini marchini@stats.ox.ac.uk | Matthew Stephens mstephens@uchicago.edu

  • Collection: -

  • Maturity: Mature

Publications

  • Fast and accurate genotype imputation in genome-wide association studies through pre-phasing.
  • Howie B, et al. Fast and accurate genotype imputation in genome-wide association studies through pre-phasing. Fast and accurate genotype imputation in genome-wide association studies through pre-phasing. 2012; 44:955-9. doi: 10.1038/ng.2354
  • https://doi.org/10.1038/ng.2354
  • PMID: 22820512
  • PMC: PMC3696580
  • A new multipoint method for genome-wide association studies by imputation of genotypes.
  • Marchini J, et al. A new multipoint method for genome-wide association studies by imputation of genotypes. A new multipoint method for genome-wide association studies by imputation of genotypes. 2007; 39:906-13. doi: 10.1038/ng2088
  • https://doi.org/10.1038/ng2088
  • PMID: 17572673
  • PMC: -
  • Genotype imputation for genome-wide association studies.
  • Marchini J and Howie B. Genotype imputation for genome-wide association studies. Genotype imputation for genome-wide association studies. 2010; 11:499-511. doi: 10.1038/nrg2796
  • https://doi.org/10.1038/nrg2796
  • PMID: 20517342
  • PMC: -
  • A flexible and accurate genotype imputation method for the next generation of genome-wide association studies.
  • Howie BN, et al. A flexible and accurate genotype imputation method for the next generation of genome-wide association studies. A flexible and accurate genotype imputation method for the next generation of genome-wide association studies. 2009; 5:e1000529. doi: 10.1371/journal.pgen.1000529
  • https://doi.org/10.1371/journal.pgen.1000529
  • PMID: 19543373
  • PMC: PMC2689936

Download and documentation


< Back to DB search