RNAither (version 2.20.0)

percCellQualControl: Quality control of the percentage of cells

Description

Plots a histogram of the percentage of cells per well (ratio of the number of identified cells and the number of identified objects) and allows the user to set an upper and a lower threshold so as to exclude wells from the analysis.

Usage

percCellQualControl(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 "percCellQualControl\_discarded\_higher.txt" or "percCellQualControl\_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

numCellQualControl

Examples

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

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