fastPHASE

A tool for genotype imputation and estimating missing haplotypes. The fastPHASE algorithm obtains a random sample from a population data and models the genealogy of chromosomes and summarizes the haplotype variation. fastPHASE estimates and corrects genotyping errors based on linkage disequilibrium (LD) patterns, associates haplotypes with binary phenotypes, and works on low-coverage sequencing data.

Topic

Population genetics

Detail

  • Operation: Phasing;Imputation

  • Software interface: Command-line user interface

  • Language: -

  • License: -

  • Cost: Free

  • Version name: 1.4

  • Credit: -

  • Input: -

  • Output: -

  • Contact: pscheet@alum.wustl.edu

  • Collection: -

  • Maturity: Stable

Publications

  • A fast and flexible statistical model for large-scale population genotype data: applications to inferring missing genotypes and haplotypic phase.
  • Scheet P and Stephens M. A fast and flexible statistical model for large-scale population genotype data: applications to inferring missing genotypes and haplotypic phase. A fast and flexible statistical model for large-scale population genotype data: applications to inferring missing genotypes and haplotypic phase. 2006; 78:629-44. doi: 10.1086/502802
  • https://doi.org/10.1086/502802
  • PMID: 16532393
  • PMC: PMC1424677

Download and documentation

< Back to DB search