A B C D E F G H I J K L M N O P R S T U V

N

Network - Interface in fern.network

The central interface of the whole framework.

NetworkChecker - Class in fern.cytoscape

NetworkChecker() - Constructor for class fern.cytoscape.NetworkChecker

NetworkChecker(String, Object, Object, String, String) - Constructor for class fern.cytoscape.NetworkChecker

NetworkChecker.EdgeClassifier - Interface in fern.cytoscape

NetworkChecker.EdgeClassifierByDirection - Class in fern.cytoscape

NetworkChecker.EdgeClassifierByDirection() - Constructor for class fern.cytoscape.NetworkChecker.EdgeClassifierByDirection

NetworkChecker.EdgeClassifierByIdentifier - Class in fern.cytoscape

NetworkChecker.EdgeClassifierByIdentifier() - Constructor for class fern.cytoscape.NetworkChecker.EdgeClassifierByIdentifier

NetworkChecker.NodeClassifier - Interface in fern.cytoscape

NetworkChecker.NodeClassifierByAnnotation<T> - Class in fern.cytoscape

NetworkChecker.NodeClassifierByAnnotation(String, T, T) - Constructor for class fern.cytoscape.NetworkChecker.NodeClassifierByAnnotation

NetworkChecker.NodeParameter - Class in fern.cytoscape

NetworkChecker.NodeParameter(String, String) - Constructor for class fern.cytoscape.NetworkChecker.NodeParameter

NetworkLoader - Class in fern.network

NetworkLoader() - Constructor for class fern.network.NetworkLoader

NetworkSearchAction - Interface in fern.analysis

Implementing classes of NetworkSearchAction are able to control/watch searches in AnalysisBase.

NetworkSearchAction.NeighborType - Enum in fern.analysis

Defines different types of neighborhoods in a Network.

NetworkTools - Class in fern.tools

Contains various helper methods dealing with the Network interface.

NetworkTools() - Constructor for class fern.tools.NetworkTools

NodeChecker - Interface in fern.analysis

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.

NodeCheckerByAnnotation - Class in fern.analysis

An instance of NodeCheckerByAnnotation can be used to control a search in AnalysisBase by a NetworkSearchAction.

NodeCheckerByAnnotation(String, String) - Constructor for class fern.analysis.NodeCheckerByAnnotation

Creates the NodeChecker with the specified annotation field and value.

nodeType - Variable in class fern.cytoscape.NetworkChecker

nodeTypeReaction - Variable in class fern.cytoscape.NetworkChecker

nodeTypeSpecies - Variable in class fern.cytoscape.NetworkChecker

NumberTools - Class in fern.tools

Contains some common methods to handle number related data structures.

NumberTools() - Constructor for class fern.tools.NumberTools