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Connection sub-graph discovery

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	CyFinder

	CyFinder

	(3) 5245 downloads

	cytoHubba
	Predicts and explores important nodes and subnetworks in a given network by several topological algorithms.

	cytoHubba
	Predicts and explores important nodes and subnetworks in a given network by several topological algorithms.
	(171) 213327 downloads

	PEWCC
	Detect dense sub-network (e.g. protein/gene complexes) in network (e.g. PPI/gene network)

	PEWCC
	Detect dense sub-network (e.g. protein/gene complexes) in network (e.g. PPI/gene network)
	(8) 4058 downloads

	TimeNexus
	Build, manage and visualize temporal multilayer networks, as well as extract active multilayer subnetworks.

	TimeNexus
	Build, manage and visualize temporal multilayer networks, as well as extract active multilayer subnetworks.
	(1) 2491 downloads

	CySpanningTree
	Spanning tree computation and MST heuristic for Travelling Salesman Problem

	CySpanningTree
	Spanning tree computation and MST heuristic for Travelling Salesman Problem
	(5) 7603 downloads

	Mclique
	Maximal Cliques in a given Cytoscape network, sorted by size

	Mclique
	Maximal Cliques in a given Cytoscape network, sorted by size
	(16) 13712 downloads

	TieDIE
	Tied Diffusion Through Interacting Events

	TieDIE
	Tied Diffusion Through Interacting Events
	(1) 6411 downloads