gPOUMM

A numeric vector of size length(tree$tip.label) representing the trait
values at the tip-nodes.

tree

A numeric value at the root of the tree, genotypic contribution.

Numeric values, parameters of the OU model.

alpha, theta, sigma

Numeric non-negative value (default 0). Specifies the standard
deviation of random environmental contribution (white noise) included in z.

sigmae

Distribution of the genotypic values under a POUMM fit

The Phylogenetic Ornstein-Uhlenbeck Mixed Model (POUMM) allows to
estimate the phylogenetic heritability of continuous traits, 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 package implements combined maximum likelihood and
Bayesian inference of the univariate Phylogenetic Ornstein-Uhlenbeck Mixed
Model, fast parallel likelihood calculation, maximum likelihood
inference of the genotypic values at the tips, functions for summarizing and
plotting traces and posterior samples, functions for simulation of a univariate
continuous trait evolution model along a phylogenetic tree. So far, the
package has been used for estimating the heritability of quantitative traits
in macroevolutionary and epidemiological studies, see e.g.
Bertels et al. (2017) <doi:10.1093/molbev/msx246> and
Mitov and Stadler (2018) <doi:10.1093/molbev/msx328>. The algorithm for
parallel POUMM likelihood calculation has been published in
Mitov and Stadler (2019) <doi:10.1111/2041-210X.13136>.

gPOUMM: Distribution of the genotypic values under a POUMM fit

Description

Usage

Arguments

Value