medusa.graph

Class Edge

java.lang.Object

medusa.graph.BasicEdge

medusa.graph.Edge

All Implemented Interfaces:

java.io.Serializable

public class Edge
extends BasicEdge

Edge object extended from BasicEdge

See Also:

Serialized Form

Field Summary

Fields inherited from class medusa.graph.BasicEdge

n1, n2

Constructor Summary

Constructors

Constructor and Description
Edge(Edge e)
Edge(java.lang.String n1, java.lang.String n2) Constructor
Edge(java.lang.String n1, java.lang.String n2, float conf) Constructor
Edge(java.lang.String n1, java.lang.String n2, float conf, int type) Constructor
Edge(java.lang.String n1, java.lang.String n2, float conf, int type, double orientation) Constructor
Edge(java.lang.String n1, java.lang.String n2, int type) Constructor
Edge(java.lang.String n1, java.lang.String n2, java.lang.Integer type, java.lang.Double orientation, java.lang.Float conf)
Edge(java.lang.String n1, java.lang.String n2, java.lang.Integer type, java.lang.Float conf, java.lang.Double orientation)
Edge(java.lang.String n1, java.lang.String n2, int type, float conf, double orientation) Constructor

Method Summary

Modifier and Type	Method and Description
boolean	containsNode(Node n)
boolean	equals(java.lang.Object o) Compares two edges
Node	getComplement(Node n) Returns the complementary node
Node	getComplement(java.lang.String name) if an edge contains a node, return the other node
float	getConf() Gets the confidence level
double	getOrientation() Gets the current orientation
int	getType() Get the interaction type
void	renameNode(java.lang.String oldName, java.lang.String newName)
java.lang.String	report() Quick report of the two nodes
void	setConf(float conf) Set confidence level
void	setOrientation(double orientation)
void	setType(int type) Set interaction type.
java.lang.String	toString()

Methods inherited from class medusa.graph.BasicEdge

contains, getFromName, getNodes, getToName, oppositeName, sameName

Methods inherited from class java.lang.Object

getClass, hashCode, notify, notifyAll, wait, wait, wait

Constructor Detail

Edge

public Edge(java.lang.String n1,
            java.lang.String n2,
            float conf,
            int type)

Constructor

Parameters:

n1 - Node 1

n2 - Node 2

conf - Confidence level

type - int type

Edge

public Edge(java.lang.String n1,
            java.lang.String n2,
            float conf,
            int type,
            double orientation)

Constructor

Parameters:

n1 - Node 1

n2 - Node 2

conf - float Confidence level

type - int type

orientation - double orientation

Edge

public Edge(java.lang.String n1,
            java.lang.String n2,
            java.lang.Integer type,
            java.lang.Double orientation,
            java.lang.Float conf)

Edge

public Edge(Edge e)

Edge

public Edge(java.lang.String n1,
            java.lang.String n2,
            java.lang.Integer type,
            java.lang.Float conf,
            java.lang.Double orientation)

Edge

public Edge(java.lang.String n1,
            java.lang.String n2,
            int type,
            float conf,
            double orientation)

Constructor

Parameters:

n1 - Node 1

n2 - Node 2

type - int type

conf - Confidence level

orientation - double orientation

Edge

public Edge(java.lang.String n1,
            java.lang.String n2)

Constructor

Parameters:

n1 - Node 1

n2 - Node 2

Edge

public Edge(java.lang.String n1,
            java.lang.String n2,
            int type)

Constructor

Parameters:

n1 - Node 1

n2 - Node 2

type - int type

Edge

public Edge(java.lang.String n1,
            java.lang.String n2,
            float conf)

Constructor

Parameters:

n1 - Node 1

n2 - Node 2

conf - Confidence level

Method Detail

setType

public void setType(int type)

Set interaction type. Edges with different types of interactions will be displayed as multiple edges

Parameters:

type - int type

getType

public int getType()

Get the interaction type

Returns:

int type

setConf

public void setConf(float conf)

Set confidence level

Parameters:

conf - float confidence 0.0 to 1.0

getConf

public float getConf()

Gets the confidence level

Returns:

float confidence 0.0 to 1.0

getComplement

public Node getComplement(java.lang.String name)

if an edge contains a node, return the other node

Parameters:

name - String name of node

Returns:

String name of other node

getComplement

public Node getComplement(Node n)

Returns the complementary node

Parameters:

n - Node first node

Returns:

Node other node

equals

public boolean equals(java.lang.Object o)

Compares two edges

Overrides:

equals in class java.lang.Object

Parameters:

o - other edge

Returns:

True if edges are the same

toString

public java.lang.String toString()

Overrides:

toString in class java.lang.Object

report

public java.lang.String report()

Description copied from class: BasicEdge

Quick report of the two nodes

Overrides:

report in class BasicEdge

Returns:

containsNode

public boolean containsNode(Node n)

Parameters:

n -

Returns:

See Also:

BasicEdge

setOrientation

public void setOrientation(double orientation)

getOrientation

public double getOrientation()

Gets the current orientation

Returns:

double orientation

renameNode

public void renameNode(java.lang.String oldName,
                       java.lang.String newName)