Package 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
    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 Details

    • 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