getEnrichmentsNetwork {OmicNavigator}

Get enrichments network from a study

Description

Get enrichments network from a study

Usage

getEnrichmentsNetwork(study, modelID, annotationID, libraries = NULL)

Arguments

study

An OmicNavigator study. Either an object of class onStudy, or the name of an installed study package.

modelID

Filter by modelID

annotationID

Filter by annotationID

libraries

The directories to search for installed study packages. If left as NULL (the default), then installed.packages will use the result of .libPaths.

Value

Returns a list with the following components:

tests

(character) Vector of testIDs

nodes

(data frame) The description of each annotation term (i.e. node). The nominal and adjusted p-values are in list-columns.

links

(list) The statistics for each pairwise overlap between the annotation terms (i.e. nodes)