RNAither (version 2.20.0)

DRQualControl: Computing the dynamic range

Description

Computes the dynamic range per plate for a complete dataset file and plots the results.

Usage

DRQualControl(header, data, nbLinesHeader, channel, plotTitle, showPlot)

Arguments

header

the header of a dataset file generated with generateDatasetFile

data

an R data frame generated with generateDatasetFile

nbLinesHeader

typically 3

channel

A character string specifying the name of the column containing the values for computing the dynamic range, 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

Value

Returns the dynamic range for each plate in the shell and saves them in a text file. The name of the text file will be the concatenation of the experiment name specified in the header and the character string "DR.txt".Shows a plot of the dynamic range values and saves it as a pdf file under the experiment name specified in the header concatenated with the function argument plotTitle.

References

M. Boutros, L. Bras, and W. Huber. Analysis of cell-based RNAi screens. Genome Biol, 7(7): R66, 2006.

Examples

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

DRQualControl(header, dataset, 3, "SigIntensity", "DR per plate", 1)