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E

E_VALUE - Static variable in class nct.service.homology.BiojavaLocalBlast
Sentinel used to specify the expectation value threshold.
E_VALUE - Static variable in class nct.service.homology.LocalBlast
Sentinel used to specify the expectation value threshold.
Edge<NodeType extends java.lang.Comparable<? super NodeType>,WeightType extends java.lang.Comparable<? super WeightType>> - Interface in nct.graph
An generic interface describing the basic components of an edge: source and target nodes, edge weight, and description.
edgeCount - Variable in class nct.visualization.cytoscape.dual.SpringEmbeddedLayouter
 
edgeDescMap - Variable in class nct.networkblast.CompatibilityGraph
 
EdgeWeightShuffle<NodeType extends java.lang.Comparable<? super NodeType>,WeightType extends java.lang.Comparable<? super WeightType>> - Class in nct.graph.util
This class performs a basic Fisher-Yates shuffle of the edge weights.
EdgeWeightShuffle(Random) - Constructor for class nct.graph.util.EdgeWeightShuffle
 
endDocument() - Method in class nct.service.interactions.DIPInteractionNetwork
Basic SAX event handler.
endDocument() - Method in class nct.service.synonyms.DIPSynonyms
Standard SAX event handler.
endDocument() - Method in class nct.xml.XMLSaxEventDistributor
 
endElement(String, String, String) - Method in class nct.service.interactions.DIPInteractionNetwork
Basic SAX event handler.
endElement(String, String, String) - Method in class nct.service.synonyms.DIPSynonyms
Standard SAX event handler.
endElement(String, String, String) - Method in class nct.xml.XMLSaxEventDistributor
 
endPrefixMapping(String) - Method in class nct.xml.XMLSaxEventDistributor
 
epsilon - Variable in class nct.networkblast.NetworkBlast
 
equals(Object) - Method in class nct.graph.BasicEdge
 
error(SAXParseException) - Method in class nct.xml.XMLSaxEventDistributor
 
evalues - Variable in class nct.service.homology.BiojavaLocalBlast
The map where the evalues between proteins are stored.
evalues - Variable in class nct.service.homology.LocalBlast
The map where the evalues between proteins are stored.
eValueThreshold - Variable in class nct.service.homology.BiojavaLocalBlast
A string representation of a double value that is the expectation value threshold for the blastall command (-e argument).
eValueThreshold - Variable in class nct.service.homology.LocalBlast
A string representation of a double value that is the expectation value threshold for the blastall command (-e argument).
expectation - Variable in class nct.networkblast.NetworkBlast
 
expectationDefault - Static variable in class nct.networkblast.NetworkBlast
 
expectationValues(SequenceGraph, SequenceGraph) - Method in class nct.service.homology.BiojavaLocalBlast
Returns a map of expectation values between nodes of the specified graphs.
expectationValues(SequenceGraph<String, Double>, SequenceGraph<String, Double>) - Method in interface nct.service.homology.HomologyModel
A method that returns a mapping of expectation values between nodes of the two graphs.
expectationValues(SequenceGraph, SequenceGraph) - Method in class nct.service.homology.LocalBlast
Returns a map of expectation values between nodes of the specified graphs.
expectationValues(SequenceGraph<String, Double>, SequenceGraph<String, Double>) - Method in class nct.service.homology.SIFHomologyReader
Returns a map of expectation values between nodes of the specified graphs.
exThresh - Variable in class nct.networkblast.HomologyGraph
 

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