shake_gprofilerResult {GeneTonic} | R Documentation

## Convert the output of g:Profiler

### Description

Convert the output of g:Profiler for straightforward use in `GeneTonic()`

### Usage

    shake_gprofilerResult(gprofiler_output_file, gprofiler_output = NULL)

### Arguments

`gprofiler_output_file` | The location of the text file output, as exported from g:Profiler
`gprofiler_output` | A data.frame with the output of `gost()` in `gprofiler2`. Usually it is one of the members of the list returned by the initial call to `gost`.

### Value

A `data.frame` compatible for use in `GeneTonic()` as `res_enrich`

### See Also

Other shakers: `shake_davidResult()`, `shake_enrichResult()`, `shake_enrichrResult()`, `shake_fgseaResult()`, `shake_topGOtableResult()`

### Examples

    # degenes <- (deseqresult2df(res_macrophage_IFNg_vs_naive, FDR = 0.01)$SYMBOL)
    # if called directly withín R...
    # enrichr_output_macrophage <- enrichr(degenes, dbs)
    # or alternatively, if downloaded from the website in tabular format
    gprofiler_output_file <- system.file(
      "extdata",
      "gProfiler_hsapiens_5-25-2020_tblexport_IFNg_vs_naive.csv",
      package = "GeneTonic"
    )
    res_from_gprofiler <- shake_gprofilerResult(gprofiler_output_file = gprofiler_output_file)

    data(gostres_macrophage, package = "GeneTonic")
    res_from_gprofiler_2 <- shake_gprofilerResult(
      gprofiler_output = gostres_macrophage$result
    )

[Package GeneTonic version 1.4.1 Index]