plotControlHistoPerplate: Plot a histogram of the data values and controls per plate

In RNAither: Statistical analysis of high-throughput RNAi screens

Description

Plots and saves a histogram of data values per experiment and per plate and shows the controls, if available, in color.

Usage

plotControlHistoPerplate(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 histograms in a pdf and a png file named after the experiment name specified in the header concatenated with the plotTitle.

Positive controls are plotted in green, negative controls in red.

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

plotControlHisto, plotControlHistoPerscreen

Examples

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

plotControlHistoPerplate(header, dataset, "SigIntensity", "Distribution of Data and Controls", 1, 1)

RNAither documentation built on Nov. 8, 2020, 8:06 p.m.