ZScorePlotTwo {RNAither} | R Documentation

## Plot signal intensities per well (II)

### Description

Plots signal intensity values for each well, a black line showing the median, two green lines showing one median absolute deviation, two red lines showing two median absolute deviations.

### Usage

    ZScorePlotTwo(header, dataset, flag, flag2, col4plot, col4anno, plotTitle, showPlot)

### Arguments

`header` | the header of a dataset file generated with `generateDatasetFile`
`dataset` | an R data frame generated with `generateDatasetFile`
`flag` | 0, 1, or 2. 0 uses the data from the complete dataset, 1 generates one plot for each experiment, 2 generates one plot for each plate.
`flag2` | 0 draws lines using mean and sd, 1 draws lines using median and mad.
`col4plot` | a character string specifying the column whose intensity values will be used for the plot
`col4anno` | in case showPlot == 1, a character string specifying the column used for identifying points
`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.

### Value

Saves the plots in pdf and png files named after the experiment name specified in the header concatenated with the `plotTitle` and if applicable the experiment number and/or the plate number.

When `flag` == 0, returns the plot name (`plotName`).

When `flag` == 1, returns a list containing:

`plotName` | The plot name
`minOfScreens` | The number of the first experiment
`numOfScreens` | The number of the last experiment

When `flag` == 2, returns a list containing: the plot name, a vector with the number of the first experiment and of the last experiment, and a vector with the number of the first plate and the number of the last plate.

### See Also

`plotBar`, `ZScorePlot`

### Examples

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

    plotname <- ZScorePlotTwo(header, dataset, 0, 1, "SigIntensity", "GeneName", "Data per well", 0)

[Package RNAither version 2.35.0 Index]