cavi_plvm: CAVI for the PLVM

In jpmeagher/vbar: Variational Bayes Ancestral Reconstruction

CAVI for the PLVM

Description

Coordinate Ascent Variational Inference for the Phylogenetic Latent Variable Model

Usage

cavi_plvm(
  plvm_list,
  tol = 1e-06,
  max_iter = 1000,
  n_samples = 1000,
  random_seed = NULL,
  progress_bar = TRUE,
  perform_checks = TRUE
)

Arguments

plvm_list	A list defining the PLVM generated by 'initialise_plvm'.
tol	A positive real-valued scalar. The required reducting in the ELBO to define convergence,
max_iter	A positive integer. The maximum number of iterations that the optimisation procedure swill run.
n_samples	A positive integer. The number of samples drawn to esimated expected auxiliary trait values.
random_seed	The seed for random number generation.
progress_bar	Logical. Should a progress bar be displayed?
perform_checks	Logical. Check if function inputs are specified correctly.

Value

The optimised PLVM and ELBO at each iteration.

See Also

initialise_plvm

jpmeagher/vbar documentation built on Nov. 22, 2022, 5:48 a.m.