tidypopgen-package: tidypopgen: Tidy Population Genetics

In tidypopgen: Tidy Population Genetics

tidypopgen: Tidy Population Genetics

Description

We provide a tidy grammar of population genetics, facilitating the manipulation and analysis of data on biallelic single nucleotide polymorphisms (SNPs). 'tidypopgen' scales to very large genetic datasets by storing genotypes on disk, and performing operations on them in chunks, without ever loading all data in memory. The full functionalities of the package are described in Carter et al. (2025) \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1101/2025.06.06.658325")}.

Author(s)

Maintainer: Andrea Manica [e-mail] (ORCID) [copyright holder]

Authors:

• Evie Carter

• Eirlys Tysall

Other contributors:

• Chang Christopher (Author of Hardy-Weinberg Equilibrium algorithm in PLINK 1.90, used in loci_hwe()) [contributor]

• Shaun Purcell (Author of Hardy-Weinberg Equilibrium algorithm in PLINK 1.90, used in loci_hwe()) [contributor]

• Bengtsson Henrik (Author of countLines in R.utils, modified for .vcf in count_vcf_variants()) [contributor]

See Also

Useful links:

• https://github.com/EvolEcolGroup/tidypopgen

• https://evolecolgroup.github.io/tidypopgen/

• Report bugs at https://github.com/EvolEcolGroup/tidypopgen/issues

tidypopgen documentation built on Aug. 28, 2025, 1:08 a.m.