rVNodesGivenTreePOUMM: Random generation of values along a phylogenetic tree...

In venelin/POUMM: The Phylogenetic Ornstein-Uhlenbeck Mixed Model

Description

Random generation of values along a phylogenetic tree following a branching OU process

Usage

rVNodesGivenTreePOUMM(tree, z0, alpha, theta, sigma, sigmae = 0)

Arguments

tree	An object of class phylo (package ape).
z0	Numeric value indicating the initial state at the root of the tree.
alpha, theta, sigma	Numeric values, parameters of the OU process.
sigmae	Numeric non-negative value (default 0). Specifies the standard deviation of random environmental contribution and or measurement standard error to be added to the values (white noise). Note that if measurement standard error, se, is known and needs to be added to the environmental contribution, the right way to specify the parameter would be sqrt(sigmae^2+se^2).

Value

A numeric vector containing the generated values at all nodes (internal and tips) of the phylogenetic tree.

venelin/POUMM documentation built on Oct. 25, 2020, 12:07 a.m.