Comparative Methods for Phylogenetic Networks

Analyze the phenotypic evolution of species of hybrid origin on a phylogenetic network. This can detect a burst of variation at the formation of a hybrid as well as an increase or decrease in trait value at a hybridization event. Parameters are estimated by maximum likelihood, and model averaging can be done automatically. Users need to enter a comparative data set and a phylogenetic network.

Build Status

This is a package for doing comparative methods on networks. It's been in peer review twice but not accepted, and the current version has a fatal flaw. So don't use it.

To install it (but see caveat above):



Reference manual

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2.1.5 by Dwueng-Chwuan Jhwueng, a year ago

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Browse source code at

Authors: Dwueng-Chwuan Jhwueng [aut, cre] , Brian C. O'Meara [aut]

Documentation:   PDF Manual  

GPL (>= 2) license

Imports corpcor, numDeriv, geiger, ape, TreeSim, mvtnorm, methods, lhs, viridis, Matrix, DEoptim, igraph, MASS, grDevices, ggplot2, cowplot, graphics, stats, metR, parallel, phytools, plyr

Suggests testthat

See at CRAN