edgeProbs: Compute the relative frequencies of state changes along edges

Description Usage Arguments Value Author(s) References See Also

Description

This function computes the relative frequencies of character state changes along edges from a sample of stochastically mapped character histories. This function assumes that all trees in the sample differ only in their mapped histories & not at all in topology or branch lengths. Note that it only asks whether the starting and ending states of the edge differ in a particular way, and thus ignores multiple-hits along a single edge.

Usage

1

Arguments

trees

an object of class "multiSimmap" containing a sample of trees that are identical in topology & branch lengths with different stochastically mapped character histories.

Value

The object that is returned is a matrix with the state changes & the relative frequency of each state change. Rows are in the order of the matrix edge for any of the mapped trees.

Author(s)

Liam Revell liam.revell@umb.edu

References

Revell, L. J. (2012) phytools: An R package for phylogenetic comparative biology (and other things). Methods Ecol. Evol., 3, 217-223.

See Also

plotSimmap



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