pw_mat_to_df

The function converts a pairwise matrix into an edge-list
data.frame

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

pw_mat_to_df function

<dl><dt>pw_mat</dt>
<dd>A pairwise matrix which can be:<ul>
<li>An object of class <code>matrix</code>. It must have
the same row names and column names. If values represent distances,
diagonal elements should be equal to 0.</li>
<li>An object of class <code>dist</code>. In that, its column numbers are
used to create IDs in the resulting data.frame.</li>
</ul></dd></dl>

Arguments

Author

Convert a pairwise matrix into an edge-list data.frame — pw_mat_to_df

<dl>

<dt>pw_mat</dt>
<dd>A pairwise matrix which can be:<ul>
<li>An object of class <code>matrix</code>. It must have
the same row names and column names. If values represent distances,
diagonal elements should be equal to 0.</li>
<li>An object of class <code>dist</code>. In that, its column numbers are
used to create IDs in the resulting data.frame.</li>
</ul></dd>

</dl>

pw_mat_to_df: Convert a pairwise matrix into an edge-list data.frame

Description

Usage

Value

Arguments

Author

Examples