POUMM: The Phylogenetic Ornstein-Uhlenbeck Mixed Model

Combined maximum likelihood and Bayesian inference of the univariate Phylogenetic Ornstein-Uhlenbeck Mixed Model; Fast POUMM likelihood calculation. Maximum likelihood inference of the genotypic values at the tips of a phylogeny assuming that the trait has evolved on it according to a POUMM with specified genotypic value at the root. Functions for summarizing and plotting the inference results; Functions for simulation of univariate continuous trait evolution along a phylogenetic tree.

Version: 1.2.1
Depends: R (≥ 3.1.0), stats, Rcpp, methods
Imports: ape, data.table, coda, foreach, ggplot2, gsl, Matrix
LinkingTo: Rcpp, RcppArmadillo
Suggests: testthat, TreeSim (≥ 2.2), Rmpfr, mvtnorm, lmtest, knitr, rmarkdown, parallel, doParallel
Published: 2017-03-11
Author: Venelin Mitov [aut, cre, cph]
Maintainer: Venelin Mitov <vmitov at gmail.com>
License: GPL (≥ 3.0)
NeedsCompilation: yes
Citation: POUMM citation info
Materials: README
CRAN checks: POUMM results

Downloads:

Reference manual: POUMM.pdf
Vignettes: A User Guide to The POUMM R-package
Package source: POUMM_1.2.1.tar.gz
Windows binaries: r-devel: POUMM_1.2.1.zip, r-release: POUMM_1.2.1.zip, r-oldrel: POUMM_1.2.1.zip
OS X Mavericks binaries: r-release: POUMM_1.2.1.tgz, r-oldrel: POUMM_1.2.1.tgz

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