numCellQualControl: Quality control of the number of cells

In RNAither: Statistical analysis of high-throughput RNAi screens

Description

Plots a histogram of the cell number per well and allows the user to set an upper and a lower threshold so as to exclude wells from the analysis.

Usage

numCellQualControl(DataSetFile, nbLinesHeader, plotTitle)

Arguments

DataSetFile	a dataset file generated with generateDatasetFile
nbLinesHeader	typically 3
plotTitle	the plot title

Value

Prints out the list of wells under and over the predefined thresholds in the shell.

Saves a list of discarded siRNA values (if applicable) in a text file named after the experiment name specified in the header concatenated with either "numCellQualControl\_discarded\_higher.txt" or "numCellQualControl\_discarded\_lower.txt".

Saves the histogram with the applied thresholds in a pdf file named after the experiment name specified in the header concatenated with the plotTitle.

Overwrites the given DataSetFile with the new dataset.

See Also

percCellQualControl

Examples

data(exampleHeader, package="RNAither")
data(exampleDataset, package="RNAither")
saveDataset(header, dataset, "save_testfile1.txt")

numCellQualControl("save_testfile1.txt", 3, "Histogram of the number of cells")

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