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popkin: Estimate Kinship and FST under Arbitrary Population Structure

Provides functions to estimate the kinship matrix of individuals from a large set of biallelic SNPs, and extract inbreeding coefficients and the generalized FST (Wright's fixation index). Method described in Ochoa and Storey (2021) <doi:10.1371/journal.pgen.1009241>.

Version:	1.3.23
Depends:	R (≥ 3.5.0)
Imports:	RColorBrewer, graphics, grDevices, ape
Suggests:	BEDMatrix, testthat, knitr, rmarkdown, bnpsd
Published:	2023-01-07
DOI:	10.32614/CRAN.package.popkin
Author:	Alejandro Ochoa [aut, cre], John D. Storey [aut]
Maintainer:	Alejandro Ochoa <alejandro.ochoa at duke.edu>
BugReports:	https://github.com/StoreyLab/popkin/issues
License:	GPL-3
URL:	https://github.com/StoreyLab/popkin/
NeedsCompilation:	no
Citation:	popkin citation info
Materials:	README NEWS
CRAN checks:	popkin results

Documentation:

Reference manual:	popkin.pdf
Vignettes:	Estimate Kinship and FST under Arbitrary Population Structure with 'popkin'

Downloads:

Package source:	popkin_1.3.23.tar.gz
Windows binaries:	r-devel: popkin_1.3.23.zip, r-release: popkin_1.3.23.zip, r-oldrel: popkin_1.3.23.zip
macOS binaries:	r-release (arm64): popkin_1.3.23.tgz, r-oldrel (arm64): popkin_1.3.23.tgz, r-release (x86_64): popkin_1.3.23.tgz, r-oldrel (x86_64): popkin_1.3.23.tgz
Old sources:	popkin archive

Reverse dependencies:

Reverse suggests:

bnpsd, ggmix, simfam, simtrait

Linking:

Please use the canonical form https://CRAN.R-project.org/package=popkin to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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