NCIgraph (version 1.20.0)

parseNCInetwork: Takes a NCI network and transforms it into a simpler graph only representing inhibition/activation relationships between genes

Description

Takes a NCI network and transforms it into a simpler graph only representing inhibition/activation relationships between genes.

Usage

parseNCInetwork(g, propagateReg=TRUE, separateEntrez=TRUE, mergeEntrezCopies=TRUE, entrezOnly=TRUE)

Arguments

g

A graph object.

propagateReg

A logical. If TRUE, use propagateRegulation to transform the network before parsing it.

separateEntrez

A logical. If TRUE, don't merge two nodes with entrezID.

mergeEntrezCopies

A logical. If TRUE, merge resulting nodes that have the same entrezID.

entrezOnly

A logical. If TRUE, only keep nodes with an entrezID property.

Value

graph object.

Examples

## Load NCIgraph

library(NCIgraph)

## Get some raw networks

data("NCIgraphVignette", package="NCIgraph")

## Parse the first of them

parsedNetwork <- parseNCInetwork(NCI.demo.cyList[[1]],propagateReg=TRUE,separateEntrez=TRUE,mergeEntrezCopies=TRUE,entrezOnly=TRUE)