BioinfoFieldExtractor
Class PhylogenTree

java.lang.Object
  BioinfoFieldExtractor.PhylogenTree

public class PhylogenTree
extends java.lang.Object

This is a generic class implementing a phylogenetic tree. It is used to construct clusters of similar messages for global alignment.

Author:

Serge Gorbunov

Constructor Summary

PhylogenTree()

Method Summary

float	getDistance() Returns the ditance score between the children
java.util.ArrayList<java.lang.Integer>	getGapsToBeInserted() Returns the array list of gaps
int	getHeight() Returns the height of the tree
int	getIndex() Returns the index
boolean	getIsLeaf() Check if the node is a leaf
PhylogenTree	getLeftChild() Returns the left child
PhylogenTree	getParent() Returns the parent node
PhylogenTree	getRightChild() Returns the right child
java.util.ArrayList<java.lang.Integer>	getValue() Returns the value
void	setDistance(float d) Sets the distance score between the children
void	setGapsToBoInserted(java.util.ArrayList<java.lang.Integer> g) Sets the gaps
void	setIndex(int i) Sets the index
void	setLeftChild(PhylogenTree l) Sets the left child
void	setParent(PhylogenTree p) Sets the parent
void	setRightChild(PhylogenTree r) Sets the right child
void	setValue(java.util.ArrayList<java.lang.Integer> newVal) Sets the value

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

PhylogenTree

public PhylogenTree()

Method Detail

getIsLeaf

public boolean getIsLeaf()

Check if the node is a leaf

Returns:

True if the node has no children, false otherwise

getHeight

public int getHeight()

Returns the height of the tree

getParent

public PhylogenTree getParent()

Returns the parent node

setParent

public void setParent(PhylogenTree p)

Sets the parent

getLeftChild

public PhylogenTree getLeftChild()

Returns the left child

setLeftChild

public void setLeftChild(PhylogenTree l)

Sets the left child

getRightChild

public PhylogenTree getRightChild()

Returns the right child

setRightChild

public void setRightChild(PhylogenTree r)

Sets the right child

setValue

public void setValue(java.util.ArrayList<java.lang.Integer> newVal)

Sets the value

getValue

public java.util.ArrayList<java.lang.Integer> getValue()

Returns the value

setIndex

public void setIndex(int i)

Sets the index

getIndex

public int getIndex()

Returns the index

setDistance

public void setDistance(float d)

Sets the distance score between the children

getDistance

public float getDistance()

Returns the ditance score between the children

setGapsToBoInserted

public void setGapsToBoInserted(java.util.ArrayList<java.lang.Integer> g)

Sets the gaps

getGapsToBeInserted

public java.util.ArrayList<java.lang.Integer> getGapsToBeInserted()

Returns the array list of gaps