phylosem_control: Detailed control for phylosem structure
In phylosem: Phylogenetic Structural Equation Model

phylosem_control

R Documentation

Detailed control for phylosem structure

Description

Define a list of control parameters. Note that the format of this input is likely to change more rapidly than that of phylosem

Usage

phylosem_control(
  nlminb_loops = 1,
  newton_loops = 1,
  trace = 0,
  eval.max = 1000,
  iter.max = 1000,
  getsd = TRUE,
  quiet = FALSE,
  run_model = TRUE,
  getJointPrecision = FALSE
)

Arguments

`nlminb_loops`	Integer number of times to call `nlminb`.
`newton_loops`	Integer number of Newton steps to do after running `nlminb`.
`trace`	Parameter values are printed every 'trace' iteration for the outer optimizer. Passed to 'control' in `nlminb`.
`eval.max`	Maximum number of evaluations of the objective function allowed. Passed to 'control' in `nlminb`.
`iter.max`	Maximum number of iterations allowed. Passed to 'control' in `nlminb`.
`getsd`	Boolean indicating whether to call `sdreport`
`quiet`	Boolean indicating whether to run model printing messages to terminal or not;
`run_model`	Boolean indicating whether to estimate parameters (the default), or instead to return the model inputs and compiled TMB object without running;
`getJointPrecision`	whether to get the joint precision matrix. Passed to `sdreport`.