corum2graphlist: Represent CORUM protein complex data as a list of graph...

In ccb-hms/BioPlex: R-side access to BioPlex protein-protein interaction data

Represent CORUM protein complex data as a list of graph instances

Description

Functionality for storing CORUM protein complex data in a list of graph instances.

Usage

corum2graphlist(corum.df, subunit.id.type = c("UNIPROT", "ENTREZID"))

Arguments

corum.df	A data.frame storing the CORUM protein complex data. Typically obtained via getCorum.
subunit.id.type	character. Supported options include "UNIPROT" (default) and "ENTREZID".

Value

A list with an entry for each complex. Each entry is an object of class graphNEL connecting all subunit IDs with each other by undirected edges.

References

CORUM: http://mips.helmholtz-muenchen.de/corum/#download

Examples

 # (1) Obtain the core set of CORUM complexes ...
 core <- getCorum(set = "core")
 
 # (2) ... turn into a list of graphs
 core.glist <- corum2graphlist(core)

ccb-hms/BioPlex documentation built on Aug. 5, 2023, 9:15 p.m.