mat_pw_fst

The function computes the pairwise FST matrix between
populations from an object of class <code>genind</code>

internal

Build graphs for landscape genetics analysis. This set of
functions can be used to import and convert spatial and genetic data
initially in different formats, import landscape graphs created with
'GRAPHAB' software (Foltete et al., 2012) <doi:10.1016/j.envsoft.2012.07.002>,
make diagnosis plots of isolation by distance relationships in order to
choose how to build genetic graphs, create graphs with a large range of
pruning methods, weight their links with several genetic distances, plot
and analyse graphs,	compare them with other graphs. It uses functions from
other packages such as 'adegenet'
(Jombart, 2008) <doi:10.1093/bioinformatics/btn129> and 'igraph' (Csardi
et Nepusz, 2006) <https://igraph.org/>. It also implements methods
commonly used in landscape genetics to create graphs, described by Dyer et
Nason (2004) <doi:10.1111/j.1365-294X.2004.02177.x> and Greenbaum et
Fefferman (2017) <doi:10.1111/mec.14059>, and to analyse distance data
(van Strien et al., 2015) <doi:10.1038/hdy.2014.62>.

Paul Savary

graph4lg

Build Graphs for Landscape Genetics Analysis

Gilles Vuidel

Tyler Rudolph

Alexandrine Daniel

mat_pw_fst function

<dl><dt>x</dt>
<dd>An object of class <code>genind</code></dd></dl>

Arguments

Negative values are converted into 0

Warnings

Author

Compute a pairwise FST matrix between populations — mat_pw_fst

<dl>

<dt>x</dt>
<dd>An object of class <code>genind</code></dd>

</dl>

Negative values are converted into 0

mat_pw_fst: Compute a pairwise FST matrix between populations

Description

Usage

Value

Arguments

Warnings

Author

Details

References

Examples