plotMethodsOverlap: Plot UpSetR for SummarizedBenchmark object

In SummarizedBenchmark: Classes and methods for performing benchmark comparisons

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

See Also

plotROC, estimatePerformanceMetrics

Examples

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

## End(Not run)

SummarizedBenchmark documentation built on Nov. 8, 2020, 8:30 p.m.