Minimal client to access the 'GitHub' 'API'.

Haplotype calling 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. The package was first described in Bioinformatics by Utsunomiya et al. (2016, <doi:10.1093/bioinformatics/btw356>). Since the v2 release, the package provides functions for unsupervised and supervised detection of ancestry tracks. The methods implemented in these functions were described in an article published in Methods in Ecology and Evolution by Utsunomiya et al. (2020, <doi:10.1111/2041-210X.13467>). The source code for v3 was modified for improved performance and inclusion of new functionality, including analysis of unphased data, runs of homozygosity, sampling methods for virtual gamete mating, mixed model fitting and GWAS.

'GitHub' apps provide a powerful way to manage fine grained
    programmatic access to specific 'git' repositories, without having to
    create dummy users, and which are safer than a personal access token
    for automated tasks. This package extends the 'gh' package to let you
    authenticate and interact with 'GitHub' <https://docs.github.com/en/rest/overview>
    in 'R' as an app.

Functions are provided for quantifying evolution and selection on complex traits. 
              The package implements effective handling and analysis algorithms scaled for 
              genome-wide data and calculates a composite statistic, denoted Ghat, which is used 
              to test for selection on a trait. The package provides a number of simple examples 
              for handling and analysing the genome data and visualising the output and results. 
              Beissinger et al., (2018) <doi:10.1534/genetics.118.300857>.