Parameter estimates

params takes an object of class PhyloEM, and returns the inferred parameters of the process.

Usage

# S3 method for class 'PhyloEM'
params_process(
  x,
  method.selection = NULL,
  K = NULL,
  alpha = NULL,
  rBM = FALSE,
  init = FALSE,
  ...
)

x: an object of class PhyloEM
method.selection: (optional) the method selection to be used. One of "LINselect", "DDSE", "Djump". Default to "LINselect".
K: (optional) an integer giving the number of shifts for which to retrieve the parameters. Default to NULL (automatically selected number of shifts, see method.selection argument).
alpha: (optional) a value of alpha for which to retrieve the parameters. Can be an (un-ambiguous) estimation of the true value. If specified, then K must be precised too. Default to NULL (automatically selected value, see method.selection argument).
rBM: (optional) if TRUE, and if the process is "scOU", returns the raw parameters of the BM on the re-scaled tree. Default to FALSE, except if the selection strength is negative (see doc of PhyloEM for an explanation of this particular case).
init: (optional) if TRUE, gives the parameters from the initialization of the EM. Default to FALSE. This has no effect if K is not specified.
...: unused.

An object of class params_process.