PartitionModularity {MODA} | R Documentation |
Calculate the average modularity of a partition. The modularity of each module is defined from a natural generalization of unweighted case.
PartitionModularity(ADJ, PartitionSet)
ADJ |
gene similarity matrix |
PartitionSet |
vector indicates the partition label for genes |
partition modularity, defined as average modularity of all modules
Dong Li, dxl466@cs.bham.ac.uk
Newman, Mark EJ. "Analysis of weighted networks." Physical review E 70.5 (2004): 056131.
data(synthetic) ADJ1=abs(cor(datExpr1,use="p"))^10 dissADJ=1-ADJ1 hierADJ=hclust(as.dist(dissADJ), method="average" ) groups <- cutree(hierADJ, h = 0.8) pDensity <- PartitionModularity(ADJ1,groups)