JAGS Structure Definition for Phylogenetic Trees — jags_structure

Implements the jags_structure_definition S3 method for phylo objects. This method is provided by the because.phybase package to extend the base because engine with phylogenetic covariance support.

Usage

# S3 method for class 'phylo'
jags_structure_definition(
  structure,
  variable_name = "err",
  optimize = TRUE,
  precision_parameter = "lambda",
  ...
)

Arguments

structure: A phylo object from the ape package.
variable_name: Name of the error variable (default "err").
optimize: Logical. If TRUE (default), uses pre-calculated precision matrix.
precision_parameter: Name of the precision parameter (default "lambda").
...: Additional arguments (ignored).

Value

A list with setup_code and error_prior JAGS code strings.