Uses of Interface
org.biopax.paxtools.pattern.miner.SIFType

Packages that use SIFType

Package	Description
org.biopax.paxtools.pattern.miner	Package for pattern miner utility.

Uses of SIFType in org.biopax.paxtools.pattern.miner

Classes in org.biopax.paxtools.pattern.miner that implement SIFType

Modifier and Type	Class	Description
enum	SIFEnum	Enum for representing supported SIF edge types.

Fields in org.biopax.paxtools.pattern.miner declared as SIFType

Modifier and Type	Field	Description
SIFType	SIFInteraction.type

Methods in org.biopax.paxtools.pattern.miner that return SIFType

Modifier and Type	Method	Description
SIFType	AbstractSIFMiner.getSIFType()
SIFType	SIFMiner.getSIFType()	Gets the type of the interaction.

Methods in org.biopax.paxtools.pattern.miner with parameters of type SIFType

Modifier and Type	Method	Description
static boolean[][]	SIFInteraction.convertToAdjacencyMatrix(Collection<SIFInteraction> sifInts, SIFType... type)	Converts the given collection of interactions into an adjacency matrix.
static List<String>	SIFInteraction.getSortedGeneNames(Collection<SIFInteraction> sifInts, SIFType... type)	Collects and sorts sourceID and targetID of the given collection of sif interactions.
protected void	AbstractSIFMiner.setType(SIFType type)	Sets the SIF type

Constructors in org.biopax.paxtools.pattern.miner with parameters of type SIFType

Modifier	Constructor	Description
	AbstractSIFMiner(SIFType type)	Constructor with interaction type.
	AbstractSIFMiner(SIFType type, String supplName, String supplDesc)	Constructor with interaction type, supplementary name, supplementary description, and ubiquitous IDs.
protected	ConsumptionControlledByMiner(SIFType type)	Constructor for extension purposes.
protected	ControlsStateChangeOfMiner(SIFType type)	Constructor for extension purposes.
	SIFInteraction(String sourceID, String targetID, BioPAXElement sourceER, BioPAXElement targetER, SIFType type, Set<BioPAXElement> mediators, Set<BioPAXElement> sourcePEs, Set<BioPAXElement> targetPEs)
	SIFSearcher(IDFetcher idFetcher, SIFType... types)	Constructor with ID fetcher and binary interaction types.
	SIFSearcher(SIFType... types)	Constructor with binary interaction types.