logLikelihood {celda} | R Documentation

## Calculate the Log-likelihood of a celda model

### Description

Calculate the log-likelihood for cell population and feature module cluster assignments on the count matrix, per celda model.

### Usage

    logLikelihood(x, celdaMod, ...)

    ## S4 method for signature 'SingleCellExperiment,ANY'
    logLikelihood(x, useAssay = "counts", altExpName = "featureSubset")

    ## S4 method for signature 'matrix,celda_C'
    logLikelihood(x, celdaMod)

    ## S4 method for signature 'matrix,celda_G'
    logLikelihood(x, celdaMod)

    ## S4 method for signature 'matrix,celda_CG'
    logLikelihood(x, celdaMod)

### Arguments

`x` | A SingleCellExperiment object returned by celda_C, celda_G, or celda_CG, with the matrix located in the `useAssay` assay slot. Rows represent features and columns represent cells.
`celdaMod` | celda model object. Ignored if `x` is a SingleCellExperiment object.
`...` | Ignored. Placeholder to prevent check warning.
`useAssay` | A string specifying which assay slot to use. Default "counts".
`altExpName` | The name for the altExp slot to use. Default "featureSubset".

### Value

The log-likelihood of the cluster assignment for the provided SingleCellExperiment.

### See Also

'celda_C()' for clustering cells

### Examples

    data(sceCeldaC, sceCeldaCG)
    loglikC <- logLikelihood(sceCeldaC)
    loglikCG <- logLikelihood(sceCeldaCG)

[Package celda version 1.6.1 Index]