.validate_phylo_args

Checks the validity of the arguments provided for phylogenetic matrix calculations.
Ensures the tree is a proper phylogenetic object and that the species column name
is correctly linked to a random effect in the model.

internal

Generates prediction intervals and orchard plots for
meta-analytic and meta-regression models fitted with the 'metafor'
package. Orchard plots augment classic forest plots by displaying
individual effect sizes together with group means and their confidence
and prediction intervals, providing an enhanced visualization of
meta-analytic data for ecology, evolution, and beyond. Methods are
described in Nakagawa et al. (2023) <doi:10.1111/2041-210X.14152>.

Daniel Noble

orchaRd

Visualizing Meta-Analyses with Orchard Plots and Prediction
Intervals

Shinichi Nakagawa

.validate_phylo_args function

<dl><dt>model</dt>
<dd>A metafor model object with random effects.</dd>
<dt>phylo_args</dt>
<dd>A list containing the arguments for the phylogenetic matrix calculation:<ul>
<li>tree: A phylogenetic tree object of class "phylo"</li>
<li>species_colname: Name of the column in the data corresponding to species names,
 which should be a random factor linked to a matrix in the model</li>
</ul></dd></dl>

Arguments

Validate Phylogenetic Arguments — .validate_phylo_args

<dl>

<dt>model</dt>
<dd>A metafor model object with random effects.</dd>


<dt>phylo_args</dt>
<dd>A list containing the arguments for the phylogenetic matrix calculation:<ul>
<li>tree: A phylogenetic tree object of class "phylo"</li>
<li>species_colname: Name of the column in the data corresponding to species names,
 which should be a random factor linked to a matrix in the model</li>
</ul></dd>

</dl>

.validate_phylo_args: Validate Phylogenetic Arguments

Description

Usage

Value

Arguments