org.biojava.nbio.alignment.template

Interface HierarchicalClusterer<S extends Sequence<C>,C extends Compound>

Type Parameters:

S - each Sequence in the tree is of type S

C - each element of a Sequence is a Compound of type C

public interface HierarchicalClusterer<S extends Sequence<C>,C extends Compound>

Defines a clustering algorithm that converts a distance matrix into a tree.

Author:

Mark Chapman

Method Summary

Modifier and Type	Method and Description
float[][]	getDistanceMatrix() Returns the distance matrix used in clustering.
GuideTreeNode<S,C>	getRoot() Returns the root node of the tree resulting from this clustering algorithm.

Method Detail

getDistanceMatrix

float[][] getDistanceMatrix()

Returns the distance matrix used in clustering. May be calculated from another original source.

Returns:

the distance matrix input to clustering

getRoot

GuideTreeNode<S,C> getRoot()

Returns the root node of the tree resulting from this clustering algorithm.

Returns:

the resulting tree output from clustering