plot_ora {CEMiTool} | R Documentation

## ORA visualization

### Description

Creates a bar plot with the results of module overrepresentation analysis

### Usage

    plot_ora(cem, ...)

    ## S4 method for signature 'CEMiTool'
    plot_ora(cem, n = 10, pv_cut = 0.05, ...)

### Arguments

`cem` | Object of class `CEMiTool`.
`...` | parameters to plot_ora_single
`n` | number of modules to show
`pv_cut` | p-value significance cutoff. Default is 0.05.

### Value

Object of class `CEMiTool` with ORA plots

### Examples

    # Get example CEMiTool object
    data(cem)
    # Read example gmt file
    gmt <- read_gmt(system.file('extdata', 'pathways.gmt',
                       package='CEMiTool'))
    # Run overrepresentation analysis
    cem <- mod_ora(cem, gmt)
    # Plot module gene expression profiles
    cem <- plot_ora(cem)
    # Check resulting plot
    show_plot(cem, "ora")

[Package CEMiTool version 1.6.11 Index]