dataSim: Simulates data from bayou models

In bayou: Bayesian Fitting of Ornstein-Uhlenbeck Models to Phylogenies

Simulates data from bayou models

Description

This function simulates data for a given set of parameter values.

Usage

dataSim(
  pars,
  model,
  tree,
  map.type = "pars",
  SE = 0,
  phenogram = TRUE,
  verbose = TRUE,
  ...
)

Arguments

pars	A bayou formated parameter list
model	The type of model specified by the parameter list (either "OU", "OUrepar" or "QG").
tree	A tree of class 'phylo'
map.type	Either "pars" if the regimes are taken from the parameter list, or "simmap" if taken from the stored simmap in the tree
SE	A single value or vector equal to the number of tips specifying the measurement error that should be simulated at the tips
phenogram	A logical indicating whether or not the simulated data should be plotted as a phenogram
verbose	Determines whether information is outputted to the console for the user to view
...	Optional parameters passed to phenogram(...).

Details

dataSim Simulates data for a given bayou model and parameter set

Value

A list with the following components:

W

Weight matrix based on the OU model and simulated shifts.

E.th

Expected trait values for each tip given the parameter set.

dat

A named vector of simulated continuous trait values.

bayou documentation built on June 10, 2025, 5:13 p.m.