RaceID (version 0.3.9)

transitionProbs: Function for the computation of transition probabilities between clusters

Description

This function computes transition probabilities between clusters based on the link probabilities of the pruned k nearest neighbour graph.

Usage

transitionProbs(res, cl, pvalue = 0.01)

Value

Matrix of transition probabilities between clusters.

Arguments

res

List object with k nearest neighbour information returned by pruneKnn function.

cl

List object with clustering information, returned by the graphCluster function. If an aggregated cluster of tiny clusters (singletons) exists, stored in residual.cluster, this cluster is disregarded, and no links with this clusters are inferred.

pvalue

Positive real number between 0 and 1. All nearest neighbours with link probability < pvalue are discarded. Default is 0.01.

Examples

res <- pruneKnn(intestinalDataSmall,knn=10,alpha=1,no_cores=1,FSelect=FALSE)
cl <- graphCluster(res,pvalue=0.01)
probs <-transitionProbs(res,cl,pvalue=0.01)