MetaPathways: a modular pipeline for constructing pathway/genome databases from environmental sequence information

Table 1 Pathway classification performance statistics for simulated metagenomes Sim1 and Sim2 at progressively larger sequence coverage

Sample	Gm	Precision	Sensitivity	Specificity	Accuracy	F-measure	Matthews
Sim1	(1/32)	0.96	0.31	0.99	0.73	0.47	0.79
Sim1	(1/16)	0.70	0.38	0.98	0.75	0.53	0.73
Sim1	(1/8)	0.76	0.57	0.98	0.82	0.71	0.81
Sim1	(1/4)	0.85	0.69	0.97	0.86	0.80	0.83
Sim1	(1/2)	0.81	0.80	0.98	0.91	0.87	0.88
Sim1	(1/1)	0.84	0.89	0.97	0.94	0.92	0.91
Sim2	(1/32)	0.93	0.25	0.99	0.70	0.40	0.74
Sim2	(1/16)	0.95	0.36	0.99	0.75	0.53	0.78
Sim2	(1/8)	0.93	0.49	0.98	0.79	0.64	0.78
Sim2	(1/4)	0.95	0.62	0.98	0.84	0.75	0.83
Sim2	(1/2)	0.97	0.70	0.98	0.88	0.81	0.87
Sim2	(1/1)	0.95	0.81	0.97	0.91	0.87	0.87

ISSN: 1471-2105