ZScorePlot: Plot normalized intensity values per well
In RNAither: Statistical analysis of high-throughput RNAi screens

Description Usage Arguments Value See Also Examples

Plots the normalized intensity values for each well, together with a black line showing the mean, two green lines showing the standard deviation, and two red lines showing 2 standard deviations.

1	ZScorePlot(header, dataset, flag, col4plot, col4anno, plotTitle, showPlot)

`header`	the header of a dataset file generated with `generateDatasetFile`
`dataset`	an R data frame generated with `generateDatasetFile`
`flag`	either 1 or 2. 1 if the dataset contains values per well, 2 if the dataset contains summarized values for each siRNA (e.g. a dataset summarized with `summarizeReps`).
`col4plot`	a character string specifying the column whose values will be used for the plot
`col4anno`	a character string specifying the column that will be used for the plot annotation
`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.

Plots the normalized intensity values for each well, together with a black line showing the mean, and two red lines showing 2 standard deviations. Clicking on the points shows the gene/siRNA name.

The plot is saved as a pdf and a png file named after the experiment name specified in the header concatenated with the plotTitle.

The function returns the plot name.

plotBar, ZScorePlotTwo

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

normedvals <- ZScore(header, dataset, list("SigIntensity", 1))
ZScorePlot(normedvals[[1]], normedvals[[2]], 1, "SigIntensity", "GeneName",
"Normed intensity values per well", 1)

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