createCondorObject: Create list amenable to analysis using 'condor' package.

In netZoo/netZooR: Unified methods for the inference and analysis of gene regulatory networks

Create list amenable to analysis using condor package.

Description

Converts an edge list into a list which is then an input for other functions in the condor package.

Usage

createCondorObject(edgelist, return.gcc = TRUE)

Arguments

edgelist	a data.frame with 'red' nodes in the first column and 'blue' nodes in the second column, representing links from the node in the first column to the node in the second column. There must be more unique 'red' nodes than 'blue' nodes. Optionally, a third column may be provided to create a weighted network.
return.gcc	if TRUE, returns the giant connected component

Value

G is an igraph graph object with a 'color' attribute based on the colnames of edgelist. This can be accessed via V(g)$color, which returns a vector indicating red/blue. Use V(g)$name with V(g)$color to identify red/blue node names

edges corresponding to graph G. If return.gcc=TRUE, includes only those edges in the giant connected component.

Qcoms output from condorCluster or condorModularityMax

modularity NULL output from condorCluster or condorModularityMax

red.memb NULL output from condorCluster or condorModularityMax

blue.memb NULL output from condorCluster or condorModularityMax

qscores NULL output from condorQscore

Examples

r = c(1,1,1,2,2,2,3,3,3,4,4);
b = c(1,2,3,1,2,4,2,3,4,3,4);
reds <- c("Alice","Sue","Janine","Mary")
blues <- c("Bob","John","Ed","Hank")
elist <- data.frame(red=reds[r],blue=blues[b])
condor.object <- createCondorObject(elist)

netZoo/netZooR documentation built on Oct. 16, 2024, 10:23 p.m.