expand.clade

plot.expand.clade

tree an object of class <code>"phylo"</code> or <code>"simmap"</code>.

tree

node index or vector of node indices.

node

expansion factor for the tip-spacing of the taxa descended from node or nodes in <code>node</code>.

factor

for <code>plot</code> method, an object of class <code>"expand.clade"</code>.

optional arguments to be passed to <code>plotTree</code> or <code>plotSimmap</code>, depending on the class of <code>x$tree</code>.

The purpose of this function is to compute a custom tip-spacing for users who want to expand or contract the tip-spacing of the descendant taxa from a given node or nodes.

utilities

phylogenetics

plotting

A wide range of functions for phylogenetic analysis - concentrated in phylogenetic comparative biology, but also including numerous methods for visualizing, manipulating, reading or writing, and even inferring phylogenetic trees. Included among the functions in phylogenetic comparative biology are various for ancestral state reconstruction, model-fitting, and simulation of phylogenies and data, for continuous, discrete, and multivariate characters. A broad range of plotting methods for phylogenies and comparative data include, but are not restricted to, methods for mapping trait evolution on trees, for projecting trees into phenotypic space or a geographic map, and for visualizing correlated speciation between trees. Finally, numerous functions are designed for reading, writing, analyzing, inferring, simulating, and manipulating phylogenetic trees and comparative data. For instance, there are functions for randomly or non-randomly attaching species or clades to a phylogeny, for computing consensus phylogenies from a set, for simulating trees and phylogenetic data under a range of models, and for a wide variety of other manipulations and analyses that phylogenetic biologists might find useful in their research.

Liam Revell

phytools

Phylogenetic Tools for Comparative Biology (and Other Things)

expand.clade function

<dl>	<dt>tree</dt>
<dd>tree an object of class <code>"phylo"</code> or <code>"simmap"</code>.</dd>	<dt>node</dt>
<dd>node index or vector of node indices.</dd>	<dt>factor</dt>
<dd>expansion factor for the tip-spacing of the taxa descended from node or nodes in <code>node</code>.</dd>	<dt>x</dt>
<dd>for <code>plot</code> method, an object of class <code>"expand.clade"</code>.</dd>	<dt>...</dt>
<dd>optional arguments to be passed to <code>plotTree</code> or <code>plotSimmap</code>, depending on the class of <code>x$tree</code>.</dd></dl>

Arguments

Liam Revell <a href="/link/liam.revell%40umb.edu?package=phytools&version=1.0-3" data-mini-rdoc="phytools::liam.revell@umb.edu">liam.revell@umb.edu</a>

Author

Expands (or contracts) the tip-spacing of a given clade or clades — expand.clade

<dl>

	<dt>tree</dt>
<dd>tree an object of class <code>"phylo"</code> or <code>"simmap"</code>.</dd>

	<dt>node</dt>
<dd>node index or vector of node indices.</dd>

	<dt>factor</dt>
<dd>expansion factor for the tip-spacing of the taxa descended from node or nodes in <code>node</code>.</dd>

	<dt>x</dt>
<dd>for <code>plot</code> method, an object of class <code>"expand.clade"</code>.</dd>

	<dt>...</dt>
<dd>optional arguments to be passed to <code>plotTree</code> or <code>plotSimmap</code>, depending on the class of <code>x$tree</code>.</dd>

</dl>

Liam Revell <a href='mailto:liam.revell@umb.edu'>liam.revell@umb.edu</a>

expand.clade: Expands (or contracts) the tip-spacing of a given clade or clades

Description

Usage

Value

Arguments

Author

References