sim.ctt

sim.multiCtt

an object of class <code>"multiSimmap"</code>.

trees

number of segments to break up the history of the tree.

segments

for <code>sim.ctt</code>, an object of class <code>"phylo"</code>.

tree

for <code>sim.ctt</code>, a transition matrix to use for simulation.

ancestral state at the root node for simulation.

number of stochastic maps per simulation.

nmaps

for <code>sim.multiCtt</code> only, the number of simulations to run.

nsim

This function generates a 'changes through time' plot in the style of a lineage-through-time (LTT) plot. It shows the mean rate or the mean number of changes per unit time from a set of stochastic character map trees.

phylogenetics

comparative method

plotting

discrete character

A wide range of functions for phylogenetic analysis. Functionality is concentrated in phylogenetic comparative biology, but also includes a diverse array of 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.

ctt: Generates (or simulates) a 'changes through time' plot from a set of stochastic map character histories

Description

Usage

Arguments

Value

References

See Also