Extract: Subsetting 'COBRAData', 'COBRAPerformance' or 'COBRAPlot'...
In iCOBRA: Comparison and Visualization of Ranking and Assignment Methods

Description Usage Arguments Value Examples

Functions to subset COBRAData, COBRAPerformance or COBRAPlot objects. COBRAData objects are subset by features (rows), while COBRAPerformance and COBRAPlot objects are subset by methods (columns). Numeric indices are not allowed, since not all slots may be arranged in the same order.

## S4 method for signature 'COBRAData'
x[i, j = "missing", drop = "missing"]

## S4 method for signature 'COBRAPerformance'
x[i = "missing", j, drop = "missing"]

## S4 method for signature 'COBRAPlot'
x[i = "missing", j, drop = "missing"]

`x`	A `COBRAData`, `COBRAPerformance` or `COBRAPlot` object.
`i`	For `COBRAData` objects, a character vector of feature names to retain.
`j`	For `COBRAPerformance` and `COBRAPlot` objects, a character vector with method names to retain.
`drop`	not used.

A subset of the original object, of the same class

data(cobradata_example)
cobradata_example[c("ENSG00000000457", "ENSG00000000971",
                    "ENSG00000000460"), ]
cobraperf <- calculate_performance(cobradata_example,
                                   binary_truth = "status",
                                   aspects = "fdrtpr")
cobraperf[, c("voom")]
cobraplot <- prepare_data_for_plot(cobraperf)
cobraplot[, c("voom")]