kernel_param

The function computes the constant parameters of a dispersal
kernel with a negative exponential distribution

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

kernel_param function

<dl><dt>p</dt>
<dd>A numeric value indicating the dispersal probability at a distance
equal to 'd_disp' under a negative exponential distribution.</dd>
<dt>d_disp</dt>
<dd>A numeric value indicating the distance to which dispersal
probability is equal to 'p' under a negative exponential distribution.</dd>
<dt>mode</dt>
<dd>A character string indicating the value to return:<ul>
<li>If 'mode = 'A'' (default), the returned value 'alpha' is such that
exp(-alpha * d_disp) = p</li>
<li>If 'mode = 'B'', the returned value 'alpha' is such that
10(-alpha * d_disp) = p</li>
</ul></dd></dl>

Arguments

Author

Compute dispersal kernel parameters — kernel_param

<dl>

<dt>p</dt>
<dd>A numeric value indicating the dispersal probability at a distance
equal to 'd_disp' under a negative exponential distribution.</dd>


<dt>d_disp</dt>
<dd>A numeric value indicating the distance to which dispersal
probability is equal to 'p' under a negative exponential distribution.</dd>


<dt>mode</dt>
<dd>A character string indicating the value to return:<ul>
<li>If 'mode = 'A'' (default), the returned value 'alpha' is such that
exp(-alpha * d_disp) = p</li>
<li>If 'mode = 'B'', the returned value 'alpha' is such that
10(-alpha * d_disp) = p</li>
</ul></dd>

</dl>

kernel_param: Compute dispersal kernel parameters

Description

Usage

Value

Arguments

Author

Details

Examples