Package fern.analysis

Interface Summary

Interface	Description
IntSearchStructure	Implementing class can be used as search structure for searches in AnalysisBase.
NetworkSearchAction	Implementing classes of NetworkSearchAction are able to control/watch searches in AnalysisBase.
NodeChecker	Implementing classes can be used for a NetworkSearchActions checkReaction, checkSpecies, if the information whether or not to visit the nodes is not accessible for the NetworkSearchAction.

Class Summary

Class	Description
AnalysisBase	This class can be used as a base class for many analysis algorithms (like AutocatalticNetworkDetection, ShortestPath, ...).
AutocatalyticNetworkDetection	Detects the autocatalytic set of the given network if there is any.
IntQueue	IntQueue is an search structure for AnalysisBase representing an fifo queue for a breadth first search.
IntStack	IntStack is an search structure for AnalysisBase representing an lifo stack for a depth first search.
NodeCheckerByAnnotation	An instance of NodeCheckerByAnnotation can be used to control a search in AnalysisBase by a NetworkSearchAction.
ShortestPath	Computes shortest paths in the network by a bfs.

Enum Summary

Enum	Description
NetworkSearchAction.NeighborType	Defines different types of neighborhoods in a Network.