Uses of Class
network.link.Link

Packages that use Link

Package	Description
extractors	A group of classes responsible for calculating structural network properties.
network	A group of classes responsible for representing the network datastructure or which perform modifying operations on networks.
network.link	A group of classes responsible for representing a link in a network.
network.link.comparator	A group of classes used to compare links to each other.
network.modifiers	A group of classes that performs modifying operations on networks.

Uses of Link in extractors

Method parameters in extractors with type arguments of type Link

Modifier and Type	Method and Description
void	TranscriptionFactorExtractor.incrementalUpdate(java.util.ArrayList<Link> nonCommittalDeleted, java.util.ArrayList<Link> nonCommitalAdded) Calculates and sets the regulatory gene function metric in an incremental way given lists of links added and deleted.
void	TranscriptionFactorExtractor.incrementalUpdate(java.util.ArrayList<Link> nonCommittalDeleted, java.util.ArrayList<Link> nonCommitalAdded) Calculates and sets the regulatory gene function metric in an incremental way given lists of links added and deleted.
void	GraphletCounterExtractor.incrementalUpdate(java.util.ArrayList<Link> nonCommittalDeleted, java.util.ArrayList<Link> nonCommittalAdded) Calculates and sets graphlet counts and frequencies in an incremental way given lists of links added and deleted
void	GraphletCounterExtractor.incrementalUpdate(java.util.ArrayList<Link> nonCommittalDeleted, java.util.ArrayList<Link> nonCommittalAdded) Calculates and sets graphlet counts and frequencies in an incremental way given lists of links added and deleted
void	DominatingExtractor.incrementalUpdate(java.util.ArrayList<Link> nonCommittalDeleted, java.util.ArrayList<Link> nonCommitalAdded) Calculates and sets the anti-dominating metric in an incremental way given lists of links added and deleted.
void	DominatingExtractor.incrementalUpdate(java.util.ArrayList<Link> nonCommittalDeleted, java.util.ArrayList<Link> nonCommitalAdded) Calculates and sets the anti-dominating metric in an incremental way given lists of links added and deleted.

Uses of Link in network

Methods in network that return Link

Modifier and Type	Method and Description
Link	Network.removeLinkFromNetwork(int index) Removes a link at a certain index permanently in the network.
Link	Network.removeLinkFromNetwork(Link e) Removes the link specified from the network permanently.
Link	Network.removeNonCommitalLinkToNetwork(Link a) Removes a temporary link from the network

Methods in network that return types with arguments of type Link

Modifier and Type	Method and Description
java.util.ArrayList<Link>	Network.getLinks()
java.util.ArrayList<Link>	Network.getNonCommitalAdded()
java.util.ArrayList<Link>	Network.getNonCommittalDeleted()

Methods in network with parameters of type Link

Modifier and Type	Method and Description
boolean	Network.addLinkToNetwork(Link link) Adds a link to the network permanently, returns false if links already exists or if it is a self-regulating link
boolean	Network.addNonCommitalLinkToNetwork(Link a) Adds a temporary link to the network
Link	Network.removeLinkFromNetwork(Link e) Removes the link specified from the network permanently.
Link	Network.removeNonCommitalLinkToNetwork(Link a) Removes a temporary link from the network

Method parameters in network with type arguments of type Link

Modifier and Type	Method and Description
void	Network.setLinks(java.util.ArrayList<Link> links)

Uses of Link in network.link

Methods in network.link with parameters of type Link

Modifier and Type	Method and Description
boolean	Link.isOppositeLink(Link link) Helper method which returns true of the given link is the opposite link of this.

Uses of Link in network.link.comparator

Methods in network.link.comparator with parameters of type Link

Modifier and Type	Method and Description
int	LinkRankComparator.compare(Link a, Link b) Overrides compare.
int	LinkNameComparator.compare(Link a, Link b) Overrides compare.

Uses of Link in network.modifiers

Methods in network.modifiers that return types with arguments of type Link

Modifier and Type	Method and Description
java.util.HashSet<Link>	PredictionModifierOpt.getModified()

Method parameters in network.modifiers with type arguments of type Link

Modifier and Type	Method and Description
void	PredictionModifierOpt.setModified(java.util.HashSet<Link> modified)