vennDiag {RNAither} | R Documentation

## Plotting a Venn Diagram to compare hits

### Description

Plots a Venn Diagram of up to three binary hit vectors.

### Usage

    vennDiag(header, listOfCols, listOfNames, plotTitle, showPlot)

### Arguments

`header` | the header of a dataset file generated with `generateDatasetFile`
`listOfCols` | a list of binary hit vectors to compare
`listOfNames` | a list of character strings for the annotation of the Venn Diagram
`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

The plot is saved in 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.

### See Also

`Ttest`, `MannWhitney`

### Examples

    data(exampleHeader, package="RNAither")

    data(pValVec1, package="RNAither")
    data(pValVec2, package="RNAither")
    data(scoredDataset1, package="RNAither")
    data(scoredDataset2, package="RNAither")

    ##for details on the generation of pValVec and scoredDataset,
    ##see the examples of the functions Ttest and MannWhitney linked above.

    scoredHits1 <- hitselectionPval(scoredDataset1, pValVec1, "SigIntensity", "pValue.ttest_l", 0.05,
    "GeneName", "pvalue_testfile1.txt")

    scoredHits2 <- hitselectionPval(scoredDataset2, pValVec2, "SigIntensity", "pValue.mannwhitney_l", 0.05,
    "GeneName", "pvalue_testfile2.txt")

    hitvector1 <- scoredHits1[[2]]
    hitvector2 <- scoredHits2[[2]]

    plot_name <- vennDiag(header, list(hitvector1, hitvector2), list("t test", "Mann-Whitney test"),
    "Venn diagram", 1)

[Package RNAither version 2.30.1 Index]