Effects of network construction methods on the clustering accuracy of Qcut. (a) Clustering accuracy on value-based networks, as a function of the distance cutoffs. (b) Clustering accuracy on CLR co-expression networks, as a function of the Z-score cutoffs. (c) Clustering accuracy on rank-based networks, as a function of the rank cutoffs. (d) Best clustering accuracy on the three types of networks, constructed with the optimal cutoffs. In all four plots, each data point is an average over the results of 100 synthetic microarray data sets.