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.
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 This package includes the Beagle API javadocs, and examples.