GHap: an R package for genome-wide haplotyping

The GHap R package was designed to call haplotypes from phased marker data. Given user-defined haplotype blocks (HapBlock), the package identifies the different haplotype alleles (HapAllele) present in the data and scores sample haplotype allele genotypes (HapGenotype) based on HapAllele dose (i.e. 0, 1 or 2 copies). The output is not only useful for analyses that can handle multi-allelic markers, but is also conveniently formatted for existing pipelines intended for bi-allelic markers.
Availability and implementation: https://cran.r-project.org/package=GHap
Contact: [e-mail]
Supplementary information: Supplementary data are available at Bioinformatics online.

Source: Bioinformatics - September 10, 2016 Category: Bioinformatics Authors: Utsunomiya, Y. T., Milanesi, M., Utsunomiya, A. T. H., Ajmone-Marsan, P., Garcia, J. F. Tags: GENETICS AND POPULATION ANALYSIS Source Type: research