phytools-package

phytools

phytools provides functions for phylogenetic comparative biology; as well as several other functions for tree inference, manipulation, and analysis that are not implemented in other R packages.
The complete list of functions can be displayed with <code><a href="/link/library(help%3Dphytools)?package=phytools&version=1.0-3" data-mini-rdoc="phytools::library(help=phytools)">library(help=phytools)</a></code>.	
The phytools development page is <a href="https://github.com/liamrevell/phytools/">https://github.com/liamrevell/phytools/</a>. More information on phytools can also be found at <a href="http://blog.phytools.org">http://blog.phytools.org</a> or <a href="http://www.phytools.org">http://www.phytools.org</a>.	
If you use phytools (or other packages that depend on phytools) in a publication, please cite it. The appropriate citation for phytools is listed below or can be obtained using <code>citation("phytools")</code> with the package installed.

package

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

Phylogenetic Tools for Comparative Biology (and Other Things)

phytools-package function

Liam J. Revell
Maintainer: Liam J. Revell &lt;liam.revell@umb.edu&gt;

Author

phytools provides functions for phylogenetic comparative biology; as well as several other functions for tree inference, manipulation, and analysis that are not implemented in other R packages.
The complete list of functions can be displayed with <code><a href='https://rdrr.io/r/base/library.html'>library(help=phytools)</a></code>.	
The phytools development page is <a href='https://github.com/liamrevell/phytools/'>https://github.com/liamrevell/phytools/</a>. More information on phytools can also be found at <a href='http://blog.phytools.org'>http://blog.phytools.org</a> or <a href='http://www.phytools.org'>http://www.phytools.org</a>.	
If you use phytools (or other packages that depend on phytools) in a publication, please cite it. The appropriate citation for phytools is listed below or can be obtained using <code>citation("phytools")</code> with the package installed.

phytools-package: phytools: Phylogenetic Tools for comparative biology (and other things)

Description

Arguments

Author

References