TABLE III.

The specificities and true discovery rates for WGCNA with varying thresholds for including edges in a final network. The results are shown for n = 20, p = 100 case with all simulation models and averaged over 1000 simulation rounds.

Simulation model	Threshold	Sensitivity	Specificity	True discovery rate	True non-discovery rate
Overdispersed poisson	0.00	0.978	0.717	0.054	0.999
	0.10	0.593	0.996	0.740	0.993
	0.20	0.563	0.999	0.929	0.993
	0.30	0.527	1.000	0.979	0.992
	0.40	0.490	1.000	0.993	0.992
	0.50	0.473	1.000	0.998	0.991
Multinomial	0.00	1.000	0.773	0.003	1.000
	0.10	0.962	0.999	0.347	1.000
	0.20	0.865	1.000	0.802	1.000
	0.30	0.718	1.000	0.879	1.000
	0.40	0.521	1.000	0.786	1.000
	0.50	0.314	1.000	0.575	1.000
SimSeq	0.00	0.929	0.624	0.025	0.999
	0.10	0.746	0.968	0.201	0.997
	0.20	0.657	0.987	0.347	0.996
	0.30	0.565	0.994	0.491	0.996
	0.40	0.478	0.997	0.618	0.995
	0.50	0.384	0.999	0.739	0.994