| Method | ||||||
---|---|---|---|---|---|---|---|
Property | MCL | MCL-CA | MCLO | CORE | COACH | CMC | HACO |
Principle | Flow simulation | Core-attach refinement over MCL | MCL with cluster overlaps | Core-attach by p-values | Core-attach by dense neighborhood | Maximal clique merging | Hier agglo cluster with overlaps |
Scored Networks | Yes | No | Yes | No | No | Yes | Yes |
Unassigned Proteins | No | Yes | No | Yes | Yes | Yes | Yes |
Parameters (default) | Inflation I (I = 2.5) | Inflation I (I = 2.5) | Inflation I , Overlap a, b (2.5, 1.0, 0.5) | / | Filter t (t = 0.225) | Merge m, Overlap t, Min clust size (0.5, 0.25, 4) | UPGMA cutoff (0.2) |
References | Dongen 2000 [18] | Srihari et al. 2009 [28] | Pu et al. 2007 [20] | Leung et al. 2009 [24] | Wu Min et al. 2009 [25] | Liu et al. 2009 [16] | Wang et al. 2009 [21] |