R: Log Likelihood of a fitted object

log_likelihood {PhylogeneticEM} | R Documentation

## 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)

- `params_process`: `params_process` object

- `PhyloEM`: `PhyloEM` object

### See Also

`params_process`, `PhyloEM`

[Package PhylogeneticEM version 1.1.0 Index]