extract_stem_age_asr

Extracts the stem age from the phylogeny when the a species is known to
belong to a genus but is not itself in the phylogeny and there are members
of the same genus are in the phylogeny using the 'asr' extraction method

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

extract_stem_age_asr function

<dl><dt>genus_in_tree</dt>
<dd>A numeric vector that indicates which species in the
genus are in the tree</dd>
<dt>phylod</dt>
<dd>A <code>phylo4d</code> object from the package <code>phylobase</code> containing
phylogenetic and endemicity data for each species.</dd></dl>

Arguments

Extracts the stem age from the phylogeny when the a species is known to
belong to a genus but is not itself in the phylogeny and there are members
of the same genus are in the phylogeny using the 'asr' extraction method — extract_stem_age_asr

<dl>

<dt>genus_in_tree</dt>
<dd>A numeric vector that indicates which species in the
genus are in the tree</dd>


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

</dl>

Extracts the stem age from the phylogeny when the a species is known to
belong to a genus but is not itself in the phylogeny and there are members
of the same genus are in the phylogeny using the 'asr' extraction method

extract_stem_age_asr: Extracts the stem age from the phylogeny when the a species is known to belong to a genus but is not itself in the phylogeny and there are members of the same genus are in the phylogeny using the 'asr' extraction method

Description

Usage

Value

Arguments