formatInformationForCXJSON: Transform the node and edge information into a format easy to...

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

Transform the node and edge information into a format easy to process to create a CX JSON text file

Description

Extract information about nodes and edges that is necessary to create the CX JSON text representing the network

Usage

formatInformationForCXJSON(results)

Arguments

results

a list containing the information about the nodes and edges present in the network. TODOS

Value

a list containing 4 entries:

• "nodes": a data.frame containing the information about the nodes present in the network.

• "edges": a data.frame containing the information about the edges present in the network.

• "nodeAttributes": a data.frame containing the attributes associated to the nodes present in the network.

• "edgesAttributes": a data.frame containing the attributes associated to the edges present in the network

Author(s)

Astrid Deschênes

Examples

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

## Only retained the GO Molecular Function results
results <- parentalNapaVsDMSOEnrichment$result[
        parentalNapaVsDMSOEnrichment$result$source == "GO:MF", ]

## Extract node and edge information
info <- enrichViewNet:::extractNodesAndEdgesInformation(gostResults=results, 
            gostObject=parentalNapaVsDMSOEnrichment)
            
## Format node and edge information
information <- enrichViewNet:::formatInformationForCXJSON(result=info)

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