plot_enrichment {GWENA} | R Documentation

## Plot module from bio_enrich

### Description

Wrapper of the gprofiler2::gostplot function. Adding support of colorblind palet and selection of subsets if initial multiple query, and/or sources to plot.

### Usage

    plot_enrichment(
      enrich_output,
      modules = "all",
      sources = "all",
      colorblind = TRUE,
      custom_palette = NULL,
      ...
    )

### Arguments

`enrich_output` | list, bio_enrich result which are in fact gprofiler2::gost output.
`modules` | string or vector of characters designing the modules to plot. "all" by default to plot every module.
`sources` | string or vector of characters designing the sources to plot. "all" by default to plot every source.
`colorblind` | boolean, indicates if a colorblind friendly palette should be used.
`custom_palette` | vector of character, colors to be used for plotting.
`...` | any other parameter you can provide to gprofiler2::gostplot.

### Details

Note: The colorblind friendly palette is limited to maximum 8 colors, therefore 8 sources of enrichment.

### Value

A plotly object representing enrichment for specified modules

### Examples

    custom_path <- system.file("extdata", "h.all.v6.2.symbols.gmt",
                               package = "GWENA", mustWork = TRUE)
    multi_module <- list(mod1 = c("BIRC3", "PMAIP1", "CASP8", "JUN", "BCL2L11",
                                  "MCL1", "IL1B", "SPTAN1", "DIABLO", "BAX",
                                  "BIK", "IL1A", "BID", "CDKN1A", "GADD45A"),
                         mod2 = c("TAF1C", "TARBP2", "POLH", "CETN2", "POLD1",
                                  "CANT1", "PDE4B", "DGCR8", "RAD51", "SURF1",
                                  "PNP", "ADA", "NME3", "GTF3C5", "NT5C"))
    multi_module_enriched <- bio_enrich(multi_module, custom_path)
    plot_enrichment(multi_module_enriched)

[Package GWENA version 1.0.1 Index]