log_likelihood {PhylogeneticEM}

Log Likelihood of a fitted object

Description

log_likelihood computes the log likelihood of some parameters.

Usage

log_likelihood(x, ...)

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

## S3 method for class '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)

• log_likelihood(params_process): params_process object

• log_likelihood(PhyloEM): PhyloEM object

See Also

params_process, PhyloEM