plotMethodsOverlap {SummarizedBenchmark} | R Documentation

## Calls UpSetR for qvalues of a `SummarizedBenchmark` object.

### Description

This function looks for an assay, called by default 'qvalue', and given an alpha threshold, it binarizes the assay matrix depending on whether its values are below the alpha threshold. Then it uses the function `upset` to plot the overlaps. The plot is only generated if at least 2 methods have observations that pass the alpha threshold.

### Usage

    plotMethodsOverlap(object, assay = "qvalue", alpha = 0.1, ...)

### Arguments

`object` | A `SummarizedBenchmark` object.
`assay` | The name of an assay.
`alpha` | An alpha value.
`...` | Further arguments passed to `upset`

### Value

An upseR plot.

### Author(s)

Alejandro Reyes

### Examples

    data( sb )
    ## Not run:
    plotMethodsOverlap(sb)

    ## End(Not run)

[Package SummarizedBenchmark version 2.2.3 Index]