dartR: gl.propShared – R documentation

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gl.propShared

Calculate a similarity(distance) matrix for individuals on the proportion of shared alleles

Description

This script calculates a individual based distance matrix. It uses an C++ implementation, so package Rcpp needs to be installed and it is therefore really fast (once it has compiled the function after the first run).

Usage

gl.propShared(x)

Arguments

`x`	– name of the genlight containing the SNP genotypes [required]

Author(s)

Bernd Gruber (Post to https://groups.google.com/d/forum/dartr)

Examples

#takes some time at the first run of the function...
## Not run: 
res <- gl.propShared(bandicoot.gl)
res[1:5,1:7] #show only a small part of the matrix

## End(Not run)

dartR

Importing and Analysing SNP and Silicodart Data Generated by Genome-Wide Restriction Fragment Analysis

v1.9.6

GPL-2

Authors

Bernd Gruber [aut, cre], Arthur Georges [aut], Jose L. Mijangos [aut], Peter J. Unmack [ctb], Oliver Berry [ctb], Lindsay V. Clark [ctb], Floriaan Devloo-Delva [ctb]

Initial release

2021-04-29