FunctionalityScore {COMPASS} | R Documentation

## Compute the Functionality Score for each subject fit in a COMPASS model

### Description

Computes the functionality score for each observation from the gamma matrix of a COMPASS model fit. The scores are normalized according to the total number of possible subsets that could be observed (`2^M - 1`).

### Usage

    FunctionalityScore(x, n, markers = NULL)

    ## S3 method for class 'COMPASSResult'
    FunctionalityScore(x, n, markers = NULL)

    ## Default S3 method:
    FunctionalityScore(x, n, markers = NULL)

### Arguments

`x` | An object of class `COMPASSResult`, as returned by `COMPASS`. Alternatively, a matrix of functionality scores, used under the assumption that the 'null' category has been dropped.
`n` | The number of markers included in an experiment. It is inferred from the data when `x` is a `COMPASSResult`.
`markers` | The set of markers for which to compute a Functionality score. By default uses all markers. Must match names returned by `markers()`.

### Value

A numeric vector of functionality scores.

### Note

The null category is implicitly dropped when computing the functionality score for a `COMPASS` result; this is not true for the regular matrix method.

### Examples

    FunctionalityScore(CR)

[Package COMPASS version 1.30.0 Index]