Uses of Class
network.node.Node

Packages that use Node

Package	Description
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.node	A group of classes represent nodes/vertices in the network

Uses of Node in network

Methods in network that return types with arguments of type Node

Modifier and Type	Method and Description
java.util.LinkedHashSet<Node>	Network.getNodes()

Method parameters in network with type arguments of type Node

Modifier and Type	Method and Description
void	Network.setNodes(java.util.LinkedHashSet<Node> nodes)

Uses of Node in network.link

Methods in network.link that return Node

Modifier and Type	Method and Description
Node	Link.getTarget() Getter for target node
Node	Link.getTf() Getter for source node/transcription factor

Methods in network.link with parameters of type Node

Modifier and Type	Method and Description
void	Link.setTarget(Node target) Setter for target node
void	Link.setTf(Node tf) Setter for source node/transcrption factor.

Constructors in network.link with parameters of type Node

Constructor and Description
Link(Node tf, Node target, LinkProperties linkProperties) Constructs a new link with associated LinkProperties

Uses of Node in network.node

Methods in network.node that return Node

Modifier and Type	Method and Description
static Node	Node.createNode(java.lang.String name) Method responsible for creating a node.
static Node	NodeCollection.getNode(java.lang.String name) Returns the node identified by a certain name.

Methods in network.node that return types with arguments of type Node

Modifier and Type	Method and Description
java.util.ArrayList<Node>	Node.getBiDirectionalLinks(Network network) Returns list of nodes connected by a birectional link in a given network context
java.util.ArrayList<Node>	Node.getIncomingLinks(Network net) Returns list of nodes connected by an incoming link in a given network context
java.util.ArrayList<Node>	Node.getOutGoingLinks(Network net) Returns list of nodes connected by an outgoing link in a given network context
java.util.HashSet<Node>	Node.getUnidirectedLinks(Network net) Returns list of nodes connected by any type of link in a given network context
static java.util.Collection<Node>	NodeCollection.returnAllRegisteredNodes() Returns a collection of all nodes currently registered in the system

Methods in network.node with parameters of type Node

Modifier and Type	Method and Description
void	Node.addIncomingLink(Network net, Node node) Adds an incoming link to this node coming from another node a.
static void	NodeCollection.addNode(Node node) Adds a new node to the collection.
void	Node.addOutGoingLink(Network net, Node node) Adds an outgoing link to this node coming from another node a.
void	Node.removeIncomingLink(Network net, Node node) Removes an incoming link to this node coming from another node a.
void	Node.removeOutGoingLink(Network net, Node node) Removes an outgoing link to this node coming from another node a.