simmap_to_nexml

nexml_to_simmap

Convert phylo with attached simmap to nexml object
Convert nexml object with simmap to phylo

Provides access to phyloinformatic data in 'NeXML' format.  The
package should add new functionality to R such as the possibility to
manipulate 'NeXML' objects in more various and refined way and compatibility
with 'ape' objects.

Carl Boettiger

RNeXML

Semantically Rich I/O for the 'NeXML' Format

Scott Chamberlain

Hilmar Lapp

Kseniia Shumelchyk

Rutger Vos

simmap_to_nexml function

<dl><dt>phy</dt>
<dd>a phylo object containing simmap <code>phy$maps</code> element,
from the phytools package</dd>
<dt>state_ids</dt>
<dd>a named character vector giving the state
names corresponding to the ids used to refer to each state
in nexml. If null ids will be generated and states taken from
the phy$states names.</dd>
<dt>nexml</dt>
<dd>a nexml object</dd></dl>

Arguments

<ul>
<li><code>nexml_to_simmap()</code>: Convert nexml object with simmap to phylo</li>
</ul>

Functions

Convert phylo with attached simmap to nexml object — simmap_to_nexml

<dl>

<dt>phy</dt>
<dd>a phylo object containing simmap <code>phy$maps</code> element,
from the phytools package</dd>


<dt>state_ids</dt>
<dd>a named character vector giving the state
names corresponding to the ids used to refer to each state
in nexml. If null ids will be generated and states taken from
the phy$states names.</dd>


<dt>nexml</dt>
<dd>a nexml object</dd>

</dl>

simmap_to_nexml: Convert phylo with attached simmap to nexml object

Description

Usage

Value

Arguments

Functions

Examples