write_biogeobears_input

Write input files for a BioGeoBEARS analysis, i.e. a phlyogenetic tree in
Newick format and occurrence data in PHYLIP format.

Extracts colonisation and branching times of island
species to be used for analysis in the R package 'DAISIE'. It uses
phylogenetic and endemicity data to extract the separate island colonists
and store them.

Joshua W. Lambert

DAISIEprep

Extracts Phylogenetic Island Community Data from Phylogenetic
Trees

Luis Valente

Pedro Santos Neves

Lizzie Roeble

Theo Pannetier

write_biogeobears_input function

<dl><dt>phylod</dt>
<dd>A <code>phylo4d</code> object from the package <code>phylobase</code> containing
phylogenetic and endemicity data for each species.</dd>
<dt>path_to_phylo</dt>
<dd>string specifying the path and name to write the phylogeny file to.</dd>
<dt>path_to_biogeo</dt>
<dd>string specifying the path and name to write the biogeography file to.</dd></dl>

Arguments

Write input files for BioGeoBEARS — write_biogeobears_input

<dl>

<dt>phylod</dt>
<dd>A <code>phylo4d</code> object from the package <code>phylobase</code> containing
phylogenetic and endemicity data for each species.</dd>


<dt>path_to_phylo</dt>
<dd>string specifying the path and name to write the phylogeny file to.</dd>


<dt>path_to_biogeo</dt>
<dd>string specifying the path and name to write the biogeography file to.</dd>

</dl>

write_biogeobears_input: Write input files for BioGeoBEARS

Description

Usage

Value

Arguments