RNAither (version 2.20.0)

makeBoxplotPerPlate: Generate a boxplot of the data per plate

Description

Generates a boxplot of intensity values per plate for each experiment available in the dataset.

Usage

makeBoxplotPerPlate(header, dataset, channel, plotTitle, plotDesign, showPlot)

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 column whose values will be used for the boxplot

plotTitle

the plot title

plotDesign

1 or 2. 1 will generate one window containing all plots, 2 will generate a series of plots.

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.

Value

For each experiment, a boxplot of intensity values per plate will be saved as a pdf and a png file named after the experiment name specified in the header concatenated with the plotTitle.The function returns a list containing:

plotName

the plotname

minOfScreens

the number of the first experiment

numOfScreens

the number of the last experiment

See Also

makeBoxplotControls, makeBoxplotControlsPerPlate, makeBoxplotControlsPerScreen, makeBoxplotPerScreen

Examples

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

makeBoxplotPerPlate(header, dataset, "SigIntensity", "Data vs. Controls", 1, 1)