Log Likelihood of a fitted object

Source: R/E_step.R

log_likelihood computes the log likelihood of some parameters.

log_likelihood(x, ...)

# S3 method for params_process
log_likelihood(x, Y_data, phylo, ...)

# S3 method for PhyloEM
log_likelihood(x, ...)

Arguments

x

an object of class params_process or PhyloEM.

...

for a PhyloEM object, further arguments to be passed on to params_process.PhyloEM (to choose which parameters to extract from the results, see documentation of this function).

Y_data

matrix of data at the tips, size p x ntaxa. Each line is a trait, and each column is a tip. The column names are checked against the tip names of the tree.

phylo

a phylogenetic tree, class phylo. incidence.matrix.full. Can be specified to avoid extra computations.

Value

The log likelihood of the data with the provided parameters on the tree.

Methods (by class)