./biology/beagle, Phasing genotypes and imputing ungenotyped markers

[ CVSweb ] [ Homepage ] [ RSS ] [ Required by ] [ Add to tracker ]


Branch: CURRENT, Version: 5.2, Package name: beagle-5.2, Maintainer: pkgsrc-users

Beagle is a software package for phasing genotypes and for imputing
ungenotyped markers.

The Beagle 5.2 genotype imputation method is described in:

B L Browning, Y Zhou, and S R Browning (2018). A one-penny imputed
genome from next generation reference panels. Am J Hum Genet
103(3):338-348. doi:10.1016/j.ajhg.2018.07.015

The most recent reference for Beagle's phasing method is:

S R Browning and B L Browning (2007) Rapid and accurate haplotype
phasing and missing data inference for whole genome association
studies by use of localized haplotype clustering. Am J Hum Genet
81:1084-1097. doi:10.1086/521987


Master sites:


Version history: (Expand)


CVS history: (Expand)


   2021-05-26 21:13:39 by Brook Milligan | Files touched by this commit (7) | Package updated
Log message:
biology/beagle: added beagle 5.2

Introduction

Beagle is a software package for phasing genotypes and for imputing
ungenotyped markers. Beagle version 5.2 provides significantly faster
genotype phasing than version 5.1

Citation

If you use Beagle in a published analysis, please report the program
version and cite the appropriate article.

The Beagle 5.2 genotype imputation method is described in:

  B L Browning, Y Zhou, and S R Browning (2018). A one-penny imputed
  genome from next generation reference panels. Am J Hum Genet
  103(3):338-348. doi:10.1016/j.ajhg.2018.07.015

The most recent reference for Beagle's phasing method is:

  S R Browning and B L Browning (2007) Rapid and accurate haplotype
  phasing and missing data inference for whole genome association
  studies by use of localized haplotype clustering. Am J Hum Genet
  81:1084-1097. doi:10.1086/521987

This reference will be updated when the Beagle version 5 phasing
method is published.