bref3

Genotype calling, genotype phasing and imputation of ungenotyped markers

Install

All systems
curl cmd.cat/bref3.sh
Debian Debian
apt-get install beagle
Ubuntu
apt-get install beagle
image/svg+xml Kali Linux
apt-get install beagle
OS X
brew install beagle
Raspbian
apt-get install beagle

beagle

Genotype calling, genotype phasing and imputation of ungenotyped markers

Beagle performs genotype calling, genotype phasing, imputation of ungenotyped markers, and identity-by-descent segment detection. Genotypic imputation works on phased haplotypes using a Li and Stephens haplotype frequency model. Beagle also implements the Refined IBD algorithm for detecting homozygosity-by-descent (HBD) and identity-by-descent (IBD) segments.