intactGraph-class {Rintact}R Documentation

Class "intactGraph"

Description

A class representing the IntAct data as a graph. It is a superclass of the graph class.

Objects from the Class

Objects are usually created by intactXML2Graph.

Slots

interactors:
matrix, Each row represents one interactor. IntAct IDs are used as row names. Each column represents one annotation. Annotations include: UniProt ID, gene symbol, full name, locus name, ORF name, organism name, and NCBI taxonomy ID. Only those interactors which are the nodes of the intactGraph is given.

Methods

show
signature(object = "intactGraph"): a print method
translateIntactID
signature(object = "intactGraph"): a method to translate IntAct codes to the various annotations.
translateNodeID
signature(object = "intactGraph"): a method that takes an intactGraph and translates each node ID from the IntAct accension IDs to any other supported identifier.

Author(s)

T Chiang

See Also

intactXML2Graph


[Package Rintact version 1.4.0 Index]