jtBaseApp/node_modules/density-clustering/lib/KMEANS.js

/**
 * KMEANS clustering
 *
 * @author Lukasz Krawczyk <contact@lukaszkrawczyk.eu>
 * @copyright MIT
 */

/**
 * KMEANS class constructor
 * @constructor
 *
 * @param {Array} dataset
 * @param {number} k - number of clusters
 * @param {function} distance - distance function
 * @returns {KMEANS}
 */
 function KMEANS(dataset, k, distance) {
  this.k = 3; // number of clusters
  this.dataset = []; // set of feature vectors
  this.assignments = []; // set of associated clusters for each feature vector
  this.centroids = []; // vectors for our clusters

  this.init(dataset, k, distance);
}

/**
 * @returns {undefined}
 */
KMEANS.prototype.init = function(dataset, k, distance) {
  this.assignments = [];
  this.centroids = [];

  if (typeof dataset !== 'undefined') {
    this.dataset = dataset;
  }

  if (typeof k !== 'undefined') {
    this.k = k;
  }

  if (typeof distance !== 'undefined') {
    this.distance = distance;
  }
};

/**
 * @returns {undefined}
 */
KMEANS.prototype.run = function(dataset, k) {
  this.init(dataset, k);

  var len = this.dataset.length;

  // initialize centroids
  for (var i = 0; i < this.k; i++) {
    this.centroids[i] = this.randomCentroid();
	}

  var change = true;
  while(change) {

    // assign feature vectors to clusters
    change = this.assign();

    // adjust location of centroids
    for (var centroidId = 0; centroidId < this.k; centroidId++) {
      var mean = new Array(maxDim);
      var count = 0;

      // init mean vector
      for (var dim = 0; dim < maxDim; dim++) {
        mean[dim] = 0;
      }

      for (var j = 0; j < len; j++) {
        var maxDim = this.dataset[j].length;

        // if current cluster id is assigned to point
        if (centroidId === this.assignments[j]) {
          for (var dim = 0; dim < maxDim; dim++) {
            mean[dim] += this.dataset[j][dim];
          }
          count++;
        }
      }

      if (count > 0) {
        // if cluster contain points, adjust centroid position
        for (var dim = 0; dim < maxDim; dim++) {
          mean[dim] /= count;
        }
        this.centroids[centroidId] = mean;
      } else {
        // if cluster is empty, generate new random centroid
        this.centroids[centroidId] = this.randomCentroid();
        change = true;
      }
    }
  }

  return this.getClusters();
};

/**
 * Generate random centroid
 *
 * @returns {Array}
 */
KMEANS.prototype.randomCentroid = function() {
  var maxId = this.dataset.length -1;
  var centroid;
  var id;

  do {
    id = Math.round(Math.random() * maxId);
    centroid = this.dataset[id];
  } while (this.centroids.indexOf(centroid) >= 0);

  return centroid;
}

/**
 * Assign points to clusters
 *
 * @returns {boolean}
 */
KMEANS.prototype.assign = function() {
  var change = false;
  var len = this.dataset.length;
  var closestCentroid;

  for (var i = 0; i < len; i++) {
    closestCentroid = this.argmin(this.dataset[i], this.centroids, this.distance);

    if (closestCentroid != this.assignments[i]) {
      this.assignments[i] = closestCentroid;
      change = true;
    }
  }

  return change;
}

/**
 * Extract information about clusters
 *
 * @returns {undefined}
 */
KMEANS.prototype.getClusters = function() {
  var clusters = new Array(this.k);
  var centroidId;

  for (var pointId = 0; pointId < this.assignments.length; pointId++) {
    centroidId = this.assignments[pointId];

    // init empty cluster
    if (typeof clusters[centroidId] === 'undefined') {
      clusters[centroidId] = [];
    }

    clusters[centroidId].push(pointId);
  }

  return clusters;
};

// utils

/**
 * @params {Array} point
 * @params {Array.<Array>} set
 * @params {Function} f
 * @returns {number}
 */
KMEANS.prototype.argmin = function(point, set, f) {
  var min = Number.MAX_VALUE;
  var arg = 0;
  var len = set.length;
  var d;

  for (var i = 0; i < len; i++) {
    d = f(point, set[i]);
    if (d < min) {
      min = d;
      arg = i;
    }
  }

  return arg;
};

/**
 * Euclidean distance
 *
 * @params {number} p
 * @params {number} q
 * @returns {number}
 */
KMEANS.prototype.distance = function(p, q) {
  var sum = 0;
  var i = Math.min(p.length, q.length);

  while (i--) {
    var diff = p[i] - q[i];
    sum += diff * diff;
  }

  return Math.sqrt(sum);
};

if (typeof module !== 'undefined' && module.exports) {
  module.exports = KMEANS;
}