The Phylogenetic Ornstein-Uhlenbeck Mixed Model (POUMM) allows to estimate the phylogenetic heritability of a continuous trait, to test hypotheses of neutral evolution versus stabilizing selection, to quantify the strength of stabilizing selection, to estimate measurement error and to make predictions about the evolution of a phenotype and phenotypic variation in a population. The POUMM package provides an easy and efficient way to perform this variety of analyses on large macro-evolutionary or epidemic trees. It implements a fast-likelihood calculation algorithm enabling MCMC-sampling with millions of iterations within minutes on contemporary multiple core processors. The package provides functions for configuring the fit of the model and a number of standard generic functions such as logLik, plot, summary, allowing a visual and a statistical assessment of the goodness of fit. This is an important step before using the model fit to answer relevant biological questions.

Installing the R-package

Read the section Installing the POUMM R-package in Get started.

Package source-code

The package source-code is available on github.

Package web-page

Check-out the package web-page for the latest news and further documentation.