haptools

Haptools is a collection of tools for simulating and analyzing genotypes and phenotypes while taking into account haplotype information. Haptools supports fast simulation of admixed genomes (with simgenotype), visualization of admixture tracks (with karyogram), simulating haplotype- and local ancestry-specific phenotype effects (with transform and simphenotype), and computing a variety of common file operations and statistics in a haplotype-aware manner.

Homepage: https://haptools.readthedocs.io/

Visit our homepage for installation and usage instructions.

citation

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Arya R Massarat, Michael Lamkin, Ciara Reeve, Amy L Williams, Matteo D’Antonio, Melissa Gymrek, Haptools: a toolkit for admixture and haplotype analysis, Bioinformatics, 2023;, btad104, https://doi.org/10.1093/bioinformatics/btad104