Package

r-phytools

Description

Phylogenetic Tools for Comparative Biology (and Other Things). A wide
range of functions for phylogenetic analysis. Functionality is
concentrated in phylogenetic comparative biology, but also includes
numerous methods for visualizing, manipulating, reading or writing, and
even inferring phylogenetic trees and data. Included among the functions
in phylogenetic comparative biology are various for ancestral state
reconstruction, model-fitting, simulation of phylogenies and data, and
multivariate analysis. There are a broad range of plotting methods for
phylogenies and comparative data which 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, there are a number of
functions for reading, writing, analyzing, inferring, simulating, and
manipulating phylogenetic trees and comparative data not covered by
other packages. For instance, there are functions for randomly or non-
randomly attaching species or clades to a phylogeny, for estimating
supertrees or 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.

Note