controlDensity {RNAither} | R Documentation

## Plotting the control density

### Description

Plots the density of positive and negative controls (if applicable) for all controls contained in the dataset.

### Usage

    controlDensity(header, dataset, channel, plotTitle, showPlot, supHisto)

### Arguments

`header` | the header of a dataset file generated with `generateDatasetFile`
`dataset` | an R data frame generated with `generateDatasetFile`
`channel` | a character string specifying the name of the column containing the values for computing the density, e.g. `"SigIntensity"`
`plotTitle` | the plot title
`showPlot` | 0 or 1. 1 will open one or several plot windows in the R GUI, 0 will only save the plot(s) without opening windows
`supHisto` | 0 or 1. 1 will additionally superimpose a colour histogram of the values for the positive and negative controls. Otherwise choose 0.

### Value

Plots the density of positive and negative controls (if applicable) for all controls contained in the dataset. The plot is saved as a pdf and a png file named after the experiment name specified in the header concatenated with the `plotTitle`.
The function returns the plot name.

### See Also

`controlDensityPerScreen`, `controlDensityPerPlate`

### Examples

    data(exampleHeader, package="RNAither")
    data(exampleDataset, package="RNAither")

    controlDensity(header, dataset, "SigIntensity", "Control density", 1, 1)

[Package RNAither version 1.4.2 Index]