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dartR.captive (version 1.0.2)

Analysing 'SNP' Data to Support Captive Breeding

Description

Functions are provided that facilitate the analysis of SNP (single nucleotide polymorphism) data to answer questions regarding captive breeding and relatedness between individuals. 'dartR.captive' is part of the 'dartRverse' suit of packages. Gruber et al. (2018) . Mijangos et al. (2022) .

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Version

Install

install.packages('dartR.captive')

Monthly Downloads

293

Version

1.0.2

License

GPL (>= 3)

Maintainer

Bernd Gruber

Last Published

February 18th, 2025

Functions in dartR.captive (1.0.2)

utils.assignment

Population assignment probabilities
utils.assignment_4

Population assignment probabilities
zzz

Setting up the package dartR.popgenomics
gl.sim.relatedness

Simulate relatedness estimates.
utils.assignment_2

Population assignment probabilities
utils.assignment_3

Population assignment probabilities
gl.assign.grm

Population assignment using grm
gl.assign.pa

Eliminates populations as possible source populations for an individual of unknown provenance, using private alleles
gl.filter.parent.offspring

Filters putative parent offspring within a population
gl.grm

Calculates an identity by descent matrix
gl.assign.mahalanobis

Assign an individual of unknown provenance to population based on Mahalanobis Distance
gl.grm.network

Represents a genomic relationship matrix (GRM) as a network
gl.run.EMIBD9

Run program EMIBD9
gl.report.parent.offspring

Identifies putative parent offspring within a population
gl.plot.network

Represents a distance or dissimilarity matrix as a network
gl.assign.pca

Assign an individual of unknown provenance to population based on PCA