Table 2:

Sensitivity of misspecified ordering when q = r = 2. The columns under label “Misspecified ordering” are simulations with misspecified prior orderings; the last column reports the performance of GR using orderings estimated by order-MCMC. Directions of the edges are ignored. The standard error for each statistic is given in parentheses.

	Misspecified ordering				order-MCMC
Kendall’s tau	0.00	0.25	0.51	1:00	0.15(0.05)
V-structures (prior)	56	56	48	50	53(4)
V-structures (shared)	56	37	18	0	41(7)
TPR	0.895 (0.031)	0.799(0.025)	0.725(0.030)	0.601(0.032)	0.820(0.037)
FDR	0.120 (0.027)	0.286(0.028)	0.399(0.031)	0.509(0.031)	0.232(0.062)
MCC	0.881 (0.024)	0.740(0.022)	0.638(0.024)	0.514(0.028)	0.781(0.047)