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] |