RNAither (version 2.20.0)

plotQQperplate: Make a QQ plot per plate

Description

Shows and saves a QQ plot of the data for each experiment and each plate in the dataset.

Usage

plotQQperplate(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 name of the column containing the values to be plotted, e.g. "SigIntensity"

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

Saves the QQ plots in 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:

histoName

the plotname

c(minOfScreens, numOfScreens)

a vector with the number of the first experiment and of the last experiment

c(minOfPlates, numOfPlates)

a vector with the number of the first plate and the number of the last plate

See Also

plotQQ, plotQQperscreen

Examples

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

plotQQperplate(header, dataset, "SigIntensity", "QQplot", 1, 1)