Install beagle-doc by entering the following commands in the terminal:
sudo apt update sudo apt install beagle-doc
Documentation for Beagle
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. . This package includes the Beagle API javadocs, and examples.