ibhClusterEval: Evaluate clustering with interaction based homogeneity

In ibh: Interaction Based Homogeneity for Evaluating Gene Lists

Description

This function calculated interaction based homogeneity for a clustering result.

Usage

ibhClusterEval(cluster, allGenesList, interactionList)

Arguments

cluster	result of clustering
allGenesList	list of genes in the same order of clustering object
interactionList	list containing the interactions. For each gene/protein, the is an entry in the list with "name" containing name of the gen/protein and "interactors" containing the list of genes/proteins interacting with it.

Value

A vector of floats representing interaction based homogeneity for each cluste

Examples

require(yeastCC)
require(stats)
data(yeastCC)
require(simpIntLists)
data(YeastBioGRIDInteractionUniqueId)

subset <- exprs(yeastCC)[1:50,]
d <- dist(subset,method="euclidean")
k <- kmeans(d, 3);
ibhClusterEval(k$cluster, rownames(subset), 
			YeastBioGRIDInteractionUniqueId)
  

ibh documentation built on Nov. 8, 2020, 7:49 p.m.