sim.corrs: Multivariate Brownian simulation with multiple correlations...

In phytools: Phylogenetic Tools for Comparative Biology (and Other Things)

Multivariate Brownian simulation with multiple correlations and rates

Description

Simulates multivariate Brownian motion evolution on a tree with multiple evolutionary correlation/covariance matrices.

Usage

sim.corrs(tree, vcv, anc=NULL, internal=FALSE)

Arguments

tree	an object of class "phylo" or "simmap".
vcv	is a square covariance matrix or named list of matrices (one for each mapped state on the tree).
anc	optional vector of values for the root state.
internal	logical value indicating whether to return states at internal nodes.

Details

This function conducts BM simulation on a tree with multiple rates and/or multiple evolutionary correlations between characters.

If vcv is a single matrix, instead of a list of matrices, sim.corrs will simulate multivariate BM with a single rate matrix.

Value

A matrix containing the multivariate tip states for the n species in the tree (and nodes if internal= TRUE).

Author(s)

Liam Revell [e-mail]

References

Revell, L. J., and D. C. Collar (2009) Phylogenetic analysis of the evolutionary correlation using likelihood. Evolution, 63, 1090-1100.

Revell, L. J. (2024) phytools 2.0: an updated R ecosystem for phylogenetic comparative methods (and other things). PeerJ, 12, e16505.

See Also

fastBM, make.simmap, read.simmap, sim.history, sim.rates

phytools documentation built on June 22, 2024, 10:39 a.m.