Plot UpSetR for SummarizedBenchmark object

Source: R/PlottingFunctions.R

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.

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.

See also

plotROC, estimatePerformanceMetrics

Examples

data(sb)
# NOT RUN {
plotMethodsOverlap(sb)
# }