SergioFierens/ai4r

# Author::    Sergio Fierens (implementation)
# License::   MPL 1.1
# Project::   ai4r
# Url::       https://github.com/SergioFierens/ai4r
#
# You can redistribute it and/or modify it under the terms of
# the Mozilla Public License version 1.1  as published by the
# Mozilla Foundation at http://www.mozilla.org/MPL/MPL-1.1.txt

require File.dirname(__FILE__) + '/../data/data_set'
require File.dirname(__FILE__) + '/../clusterers/single_linkage'

module Ai4r
  module Clusterers

    # Implementation of an Agglomerative Hierarchical clusterer with
    # centroid linkage algorithm, aka unweighted pair group method
    # centroid (UPGMC) (Everitt et al., 2001 ; Jain and Dubes, 1988 ;
    # Sokal and Michener, 1958 )
    # Hierarchical clusterer create one cluster per element, and then
    # progressively merge clusters, until the required number of clusters
    # is reached.
    # The distance between clusters is the squared euclidean distance
    # between their centroids.
    #
    #   D(cx, (ci U cj)) = | mx - mij |^2
    #   D(cx, (ci U cj)) =  (ni/(ni+nj))*D(cx, ci) +
    #                       (nj/(ni+nj))*D(cx, cj) -
    #                       (ni*nj/(ni+nj)^2)*D(ci, cj)
    class CentroidLinkage < SingleLinkage

    parameters_info :distance_function =>
          "Custom implementation of distance function. " +
          "It must be a closure receiving two data items and return the " +
          "distance between them. By default, this algorithm uses " +
          "euclidean distance of numeric attributes to the power of 2."

      # Build a new clusterer, using data examples found in data_set.
      # Items will be clustered in "number_of_clusters" different
      # clusters.
      def build(data_set, number_of_clusters = 1, **options)
        super
      end

      # This algorithms does not allow classification of new data items
      # once it has been built. Rebuild the cluster including you data element.
      def eval(data_item)
        Raise "Eval of new data is not supported by this algorithm."
      end

      protected

      # return distance between cluster cx and cluster (ci U cj),
      # using centroid linkage
      def linkage_distance(cx, ci, cj)
        ni = @index_clusters[ci].length
        nj = @index_clusters[cj].length
        ( ni * read_distance_matrix(cx, ci) +
          nj * read_distance_matrix(cx, cj) -
         1.0 * ni * nj * read_distance_matrix(ci, cj) / (ni+nj)) / (ni+nj)
      end

    end
  end
end