plot.gseaSignatures {phenoTest} | R Documentation

## GSEA-like Plot.

### Description

Builds a GSEA plot using a gseaSignature object (one of `gseaSignaturesSign` or `gseaSignaturesVar` obtained with the `gseaSignatures` function) and a gseaSignificance object (one of `gseaSignificanceSign` or `gseaSignificanceVar` obtained with the `gseaSignificance` function).

### Usage

    plot.gseaSignaturesSign(x,gseaSignificance,es.ylim,nes.ylim,es.nes="both",...)

### Arguments

`x` | object of class `gseaSignaturesSign` or `gseaSignaturesVar`.
`gseaSignificance` | object of class `gseaSignificanceSign` or `gseaSignificanceVar`.
`es.ylim` | ylim values for the ES plot.
`nes.ylim` | ylim values for the NES plot.
`es.nes` | can be "es" if we want to plot enrichment score, "nes" if we want to plot normalised enrichment scores or "both"if we want to plot them both.
`...` | Arguments to be passed to `plot`.

### Author(s)

Evarist Planet

### References

Aravind Subramanian, (October 25, 2005) Gene Set Enrichment Analysis. www.pnas.org/cgi/doi/10.1073/pnas.0506580102

### See Also

plot.gseaSignaturesSign, plot.gseaSignaturesVar

### Examples

    #for examples see the help file of gseaSigntaures: ?gseaSignatures

[Package phenoTest version 1.28.0 Index]