controlDensityPerScreen: Plotting the control density per experiment

In RNAither: Statistical analysis of high-throughput RNAi screens

Description

Plots the density of positive and negative controls (if applicable) for each experiment.

Usage

controlDensityPerScreen(header, dataset, channel, plotTitle, showPlot, supHisto)

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 for computing the density, 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
supHisto	0 or 1. 1 will additionally superimpose a colour histogram of the values for the positive and negative controls. Otherwise choose 0.

Value

Generates a series of plots for each experiment, showing the density of positive and negative controls (if applicable). The plots are saved as pdf and png files named after the experiment name specified in the header concatenated with the plotTitle and the number of the experiment.

The function returns a list of length 3 containing:

plotName	the plotname
minOfScreens	the number of the first experiment
numOfScreens	the number of the last experiment

See Also

controlDensity, controlDensityPerPlate

Examples

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

controlDensityPerScreen(header, dataset, "SigIntensity", "Control density", 1, 1)

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