The result of a functional enrichment analysis done with gprofiler2 (https://cran.r-project.org/web/packages/gprofiler2/vignettes/gprofiler2.html).

Source: R/enrichViewNet.R

The object is a list with 2 entries. It contains the results of the enrichment analysis as well as the metadata related to the analysis.

data(demoGOST)

Format

The list contains two entries. The result entry contains a data.frame with the significant results obtained by an enrichment analysis done with gprofiler2. The meta entry contains a named list with all the metadata for the query.

Value

A list containing two entries. The result entry contains a data.frame with the significant results obtained by an enrichment analysis done with gprofiler2. The meta entry contains a named list with all the metadata for the query.

Details

This dataset can be used to test the createNetwork function.

See also

  • createNetwork for transforming functional enrichment results from gprofiler2 into a Cytoscape network

  • createEnrichMap for transforming functional enrichment results from gprofiler2 into an enrichment map

Examples


## Loading dataset containing result from an enrichment analysis done with
## gprofiler2
data(demoGOST)

## Create network for WikiPathways results 
## in Cytoscape (if the application is open)
## Otherwise, create a CX file in the temporary directory
## The file can be opened in Cytoscape
createNetwork(gostObject=demoGOST, source="WP", title="Wikipathways",
    fileName=file.path(tempdir(), "Wikipathways_Demo.cx"))
#> Oh no! I can't find Cytoscape. RCy3 can not continue!
#> Please check that Cytoscape is running, CyREST is installed and your base.url parameter is correct.
#> Unable to connect to Cytoscape. 
#> CX JSON file will be created.
#> Preparing information for generating CX JSON file.
#> CX JSON file "/tmp/Rtmpsp1G54/Wikipathways_Demo.cx" has been created.
#> [1] TRUE