rphylo: Phylogenetic Analysis with Dependent Discrete Models

Implementation of dependent discrete models (with reversible jump MCMC) derived from 'BayesTraits' V5.0.3 <https://github.com/AndrewPMeade/BayesTraits-Release/tree/Release>. Original software copyright Andrew Meade and contributors, distributed under GPL-3. Modifications for this package by Vivian G. Li <liguo.vivian@gmail.com>. The following articles should be referenced when using this package: Pagel, M., A. Meade and D. Barker (2004) "Bayesian estimation of ancestral character states on phylogenies" <doi:10.1080/10635150490522232>; Pagel, M. (1994) "Detecting correlated evolution on phylogenies: a general method for the comparative analysis of discrete characters" <doi:10.1098/rspb.1994.0006>; Pagel, M. and A. Meade (2006) "Bayesian analysis of correlated evolution of discrete characters by reversible-jump Markov chain Monte Carlo" <doi:10.1086/503444>.

Version:	0.1.1
Depends:	R (≥ 3.5)
Imports:	ape, phangorn, expm, stats
Published:	2026-06-23
DOI:	10.32614/CRAN.package.rphylo
Author:	Vivian G. Li [aut, cre], Andrew Meade [ctb] (Original 'BayesTraits' implementation), Mark Pagel [ctb] (Original 'BayesTraits' implementation)
Maintainer:	Vivian G. Li <liguo.vivian at gmail.com>
License:	GPL-3
NeedsCompilation:	no
Citation:	rphylo citation info
Materials:	README
CRAN checks:	rphylo results

Documentation:

Reference manual:

rphylo.html , rphylo.pdf

Downloads:

Package source:	rphylo_0.1.1.tar.gz
Windows binaries:	r-devel: rphylo_0.1.1.zip, r-release: rphylo_0.1.1.zip, r-oldrel: rphylo_0.1.1.zip
macOS binaries:	r-release (arm64): rphylo_0.1.1.tgz, r-oldrel (arm64): rphylo_0.1.1.tgz, r-release (x86_64): rphylo_0.1.1.tgz, r-oldrel (x86_64): rphylo_0.1.1.tgz

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