rnb.plot.control.boxplot {RnBeads} | R Documentation

## rnb.plot.control.boxplot

### Description

Box plots of various control probes

### Usage

    rnb.plot.control.boxplot(rnb.set,
      type = rnb.infinium.control.targets(rnb.set@target)[1],
      writeToFile = FALSE, numeric.names = FALSE, ...)

### Arguments

`rnb.set` | `RnBeadRawSet` or `RnBeadSet` object with valid quality control information.
`type` | type of the control probe; must be one of the `"BISULFITE CONVERSION I"`, `"BISULFITE CONVERSION II"`, `"EXTENSION"`, `"HYBRIDIZATION"`, `"NEGATIVE"`, `"NON-POLYMORPHIC"`, `"NORM_A"`, `"NORM_C"`, `"NORM_G"`, `"NORM_T"`, `"SPECIFICITY I"`, `"SPECIFICITY II"`, `"STAINING"`, `"TARGET REMOVAL"`.
`writeToFile` | flag specifying whether the output should be saved as `ReportPlot`
`numeric.names` | if `TRUE` and `writeToFile` is `TRUE`substitute the plot options in the plot file name with digits
`...` | other arguments to `createReportPlot`

### Value

plot as an object of type `ReportPlot` if `writeToFile` is `TRUE` and of class `ggplot` otherwise.

### Author(s)

Pavlo Lutsik

### Examples

    library(RnBeads.hg19)
    data(small.example.object)
    rnb.plot.control.boxplot(rnb.set.example)

[Package RnBeads version 1.12.1 Index]