demoGOST: The result of a functional enrichment analysis done with...

In adeschen/gprofiler2cytoscape: From functional enrichment results to biological networks

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

Description

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.

Usage

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.

Details

This dataset can be used to test the createNetwork function.

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.

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"))

adeschen/gprofiler2cytoscape documentation built on Nov. 4, 2024, 3:16 p.m.