psimi25Graph-class: Class "psimi25Graph" ~~~

In alyst/RpsiXML: R interface to PSI-MI 2.5 files

Description

A graph object representing data extracted from PSI-MI 2.5 files

Objects from the Class

Objects can be created by calls of the form psimi25XML2Graph

Slots

interactors:

Object of class "matrix", interactor information in a matrix, Each row represents one interactor. Source IDs are used as row names. Each column represents one annotation. Annotations include: UniProt ID, short label, organism name, and NCBI taxonomy ID. Only those interactors which are the nodes of the psimi25Graph is given.

abstract:

Object of class pubMedAbst

Extends

Class graphNEL, directly. Class graphNEL, by class "graphNEL", distance 2.

Methods

show

signature(object = "psimi25Graph"): show method

translateSourceID

signature(r = "psimi25Graph"): translate the source ID into other IDs

abstract

signature(object="psimi25Graph"): get the abstract information for the dataset from NCBI

Author(s)

Tony Chiang <[e-mail]> , Jitao David Zhang <[e-mail]>

See Also

psimi25XML2Graph,S4classpsimi25Hypergraph-class

Examples

showClass("psimi25Graph")

alyst/RpsiXML documentation built on Nov. 21, 2019, 5:47 a.m.