add_species_stat

species_stat

Adds, or reads species statistics from objects in the <code>nodiv</code> package

An implementation of the nodiv algorithm, see Borregaard, M.K., Rahbek, C., Fjeldsaa, J., Parra, J.L., Whittaker, R.J. & Graham, C.H. 2014. Node-based analysis of species distributions. Methods in Ecology and Evolution 5(11): 1225-1235. <DOI:10.1111/2041-210X.12283>. Package for phylogenetic analysis of species distributions. The main function goes through each node in the phylogeny, compares the distributions of the two descendant nodes, and compares the result to a null model. This highlights nodes where major distributional divergence have occurred. The distributional divergence for these nodes is mapped.

Michael Borregaard

nodiv

Compares the Distribution of Sister Clades Through a Phylogeny

species_stat function

<dl> <dt>distrib_data</dt>
<dd>An object of type <code>distrib_data</code>, <code>nodiv_data</code> or <code>nodiv_result</code></dd> <dt>species_stat</dt>
<dd>A species statistic, such as body size or cold tolerance. This can be a vector or a data.frame. If 
<code>specs</code> is not specified, the function tries to match <code>species_stat</code> to the site names of the 
<code>distrib_data</code> object. The function looks for vector names, rownames, or variables in the data.frame that match the species names. If species names are absent and the number of species_stats match, the species_stat is assumed to be in the correct order.</dd> <dt>specs</dt>
<dd>A character or numeric variable specifying the species of interest, or for which species_stat is specified</dd> <dt>statname</dt>
<dd>The name of a species statistic in the <code>distrib_data</code> object. If statname is not given, a list of
names of species statistics is given</dd></dl>

Arguments

Author

Species statistics of nodiv data objects — species_stat

<dl>

 <dt>distrib_data</dt>
<dd>An object of type <code>distrib_data</code>, <code>nodiv_data</code> or <code>nodiv_result</code></dd>

 <dt>species_stat</dt>
<dd>A species statistic, such as body size or cold tolerance. This can be a vector or a data.frame. If 
<code>specs</code> is not specified, the function tries to match <code>species_stat</code> to the site names of the 
<code>distrib_data</code> object. The function looks for vector names, rownames, or variables in the data.frame that match the species names. If species names are absent and the number of species_stats match, the species_stat is assumed to be in the correct order.</dd>

 <dt>specs</dt>
<dd>A character or numeric variable specifying the species of interest, or for which species_stat is specified</dd>

 <dt>statname</dt>
<dd>The name of a species statistic in the <code>distrib_data</code> object. If statname is not given, a list of
names of species statistics is given</dd>

</dl>

species_stat: Species statistics of `nodiv` data objects

Description

Usage

Value

Arguments

Author

See Also