Package: popkin 1.3.23.9000

Alejandro Ochoa

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>.

Authors:Alejandro Ochoa [aut, cre], John D. Storey [aut]

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NEWS

# Install 'popkin' in R:
install.packages('popkin', repos = c('https://storeylab.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/storeylab/popkin/issues

Datasets:

On CRAN:

6.08 score 19 stars 64 scripts 312 downloads 2 mentions 19 exports 6 dependencies

Last updated 2 months agofrom:dd9a36834f. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 06 2024
R-4.5-winOKNov 06 2024
R-4.5-linuxOKNov 06 2024
R-4.4-winOKNov 06 2024
R-4.4-macOKNov 06 2024
R-4.3-winOKNov 06 2024
R-4.3-macOKNov 06 2024

Exports:admix_label_colsadmix_order_colsavg_kinship_subpopsfstinbrinbr_diagmean_kinshipn_effplot_admixplot_phyloplot_popkinpopkinpopkin_Apopkin_A_min_subpopspopkin_afpwfstrescale_popkinvalidate_kinshipweights_subpops

Dependencies:apedigestlatticenlmeRColorBrewerRcpp

Estimate Kinship and FST under Arbitrary Population Structure with popkin

Alejandro Ochoa and John D. Storey

Rendered frompopkin.Rmdusingknitr::rmarkdownon Nov 06 2024.

Last update: 2023-01-06
Started: 2017-05-05