BEAGLE

Record added by Jurg Ott (the original Rockefeller list)

Version

3.2.1 (May 2010)

Description

BEAGLE is a state of the art software package for analysis of large-scale genetic data sets with hundreds of thousands of markers genotyped on thousands of samples. BEAGLE can

  • phase genotype data (i.e. infer haplotypes) for unrelated individuals, parent-offspring pairs, and parent-offspring trios

  • infer sporadic missing genotype data

  • impute ungenotyped markers that have been genotyped in a reference panel

  • perform single marker and haplotypic association analysis

  • detect genetic regions that are homozygous-by-descent in an individual or identical-by-descent in pairs of individuals.

Author

  • Brian L Browning

  • Sharon R Browning (email: browning@stat.auckland.ac.nz)

URL

http://www.stat.auckland.ac.nz/~browning/beagle/beagle.html

Language

Java

OS

MS-Windows, Linux, UNIX(Solaris), MacOS

Reference

  • Browning SR and Browning BR (2007), “Rapid and accurate haplotype phasing and missing-data inference for whole-genome association studies by use of localized haplotype clustering”, American Journal of Human Genetics, 81(5):1084-1097

  • Browning BR and Browning SR (2007), “Efficient multilocus association testing for whole genome association studies using localized haplotype clustering”, Genetic Epidemiology, 31:365-375.