Accessor and replacement functions for onlyshared slot

Accessor and replacement functions for the onlyshared slot in a COBRAPerformance or COBRAPlot object.

Usage

onlyshared(x, ...)

onlyshared(x, ...) <- value

# S4 method for class 'COBRAPerformance'
onlyshared(x)

# S4 method for class 'COBRAPerformance,logical'
onlyshared(x) <- value

# S4 method for class 'COBRAPlot,logical'
onlyshared(x) <- value

Arguments

x

A COBRAPerformance or COBRAPlot object.

...

Additional arguments.

value

A logical indicating whether only features that are shared between result and truth are retained, or if all features in the truth are used.

Value

The accessor function returns a logical indicating whether only features that are shared between result and truth are retained, or if all features in the truth are used.

Author

Charlotte Soneson

Examples

data(cobradata_example)
cobraperf <- calculate_performance(cobradata_example,
                                   binary_truth = "status",
                                   aspects = "fdrtpr")
#> Warning: Object doesn't have a slot sval. Please run update_cobradata(). For consistency, I will return an empty data.frame
#> column DESeq2 is being ignored for NBRS calculations
#> column DESeq2 is being ignored for TPR calculations
#> column DESeq2 is being ignored for FDR calculations
head(onlyshared(cobraperf))
#> [1] FALSE