RnBeads (version 1.4.0)

rnb.plot.control.boxplot: 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 TRUEsubstitute 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.

Examples

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