compute_individual_specific_latent_trait_elbo: Individual Specific Latent Trait Trait ELBO
In jpmeagher/vbar: Variational Bayes Ancestral Reconstruction

compute_individual_specific_latent_trait_elbo

R Documentation

Individual Specific Latent Trait Trait ELBO

Description

Compute the contribution of individual specific latent traits to the Evidence Lower Bound (ELBO) of a PLVM given the approximate posterior distribution for loadings and latent traits

Usage

compute_individual_specific_latent_trait_elbo(
  individual_specific_latent_trait_expectation,
  taxon_id,
  phy,
  terminal_taxon_specific_latent_trait_expectation,
  individual_specific_latent_trait_covariance,
  individual_specific_latent_trait_outer_product_expectation,
  terminal_taxon_latent_trait_outer_product_expectation,
  within_taxon_amplitude,
  perform_checks = TRUE
)

Arguments

`individual_specific_latent_trait_expectation`	A NxL matrix of real values. The expected value of the individual specific latent traits.
`taxon_id`	A N-dimensional vector of labels. Matches each individual specific latent trait to a terminal node in phy. Each element must correspond to one of phy$tip.labels.
`phy`	An object of class "phylo".
`terminal_taxon_specific_latent_trait_expectation`	A SxL matrix of real values. The expected taxon-specific latent trait for terminal nodes in phy. Rows must be ordered by phy$tip.labels.
`individual_specific_latent_trait_covariance`	A LxL covariance matrix. The covariance of individual specific latent traits under the approximate posterior.
`individual_specific_latent_trait_outer_product_expectation`	A LxLxN array of real values. The expected outer product of individual specific latent traits under the approximate posterior.
`terminal_taxon_latent_trait_outer_product_expectation`	A LxLxS array of real values. The expected outer product of taxon specific latent traits at terminal nodes under the approximate posterior.
`within_taxon_amplitude`	An L-dimensional vector of real values on the interval [0, 1]. The within-taxon variation parameters for each of the L latent traits.
`perform_checks`	Logical. Check if function inputs are specified correctly.