spatialDistrib {RNAither} | R Documentation

## Generate spatial plots of intensity values

### Description

Generate plots of plates and their intensity values.

### Usage

    spatialDistrib(header, dataset, plotTitle, col4plot, col4anno, showPlot)

### Arguments

`header` | the header of a dataset file generated with `generateDatasetFile`
`dataset` | an R data frame generated with `generateDatasetFile`
`plotTitle` | the plot title
`col4plot` | a character string specifying the column whose values will be used for the plot
`col4anno` | a character string specifying the column whose values will be used for the annotation of the plot
`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

For each plate, the plot will be saved as a png file named after the experiment name specified in the header concatenated with the `plotTitle`, the number of the experiment, and the number of the plate.

Wells containing positive controls are marked with a "P", wells containing negative controls with an "N".

Each plate will also be saved as an html file containing mouse-overs with the siRNA name for each well.

The function returns a list containing:

`histoName` | the plotname
`c(minOfScreens, numOfScreens)` | a vector with the number of the first experiment and of the last experiment
`c(minOfPlates, numOfPlates)` | a vector with the number of the first plate and the number of the last plate

### See Also

`compareReplicateSD`, `compareReplicateSDPerScreen`

### Examples

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

    spatialDistrib(header, dataset, "Spatial distribution of cell counts", "NbCells", "GeneName", 1)

[Package RNAither version 2.36.0 Index]