GOstructure {globaltest}R Documentation

Class "GOstructure" to serve as input for the function gtGO

Description

The class GOstructure stores the Gene Ontology information that can be used by the gtGO function to find a GO subgraph significantly associated with a response variable. Objects of type GOstructure are typically made with a call to makeGOstructure.

Slots

ids:
Object of class "character". Vector of GO identifiers.
offspring:
A named list of vectors of GO identifiers. Lists all offspring terms of each term.
ancestors:
A named list of vectors of GO identifiers. Lists all ancestor terms of each term.
genesets:
A named list of vectors of gene identifiers. Lists the genes annotated to each GO id.

Methods

show
(GOstructure): Summarizes the object.
length
(GOstructure): Gives the number of GO ids in the object.
genesets
(GOstructure): Extracts the genesets slot.

Author(s)

Jelle Goeman: j.j.goeman@lumc.nl; Jan Oosting

See Also

gtGO, makeGOstructure.


[Package globaltest version 4.8.0 Index]