spearman.cpp

   1 /*
   2  *  spearman.cpp
   3  *  Mothur
   4  *
   5  *  Created by westcott on 12/15/10.
   6  *  Copyright 2010 Schloss Lab. All rights reserved.
   7  *
   8  */
   9
  10 #include "spearman.h"
  11
  12 /***********************************************************************/
  13 EstOutput Spearman::getValues(vector<SharedRAbundVector*> shared) {
  14         try {
  15                 data.resize(1,0);
  16
  17                 SAbundVector savA = shared[0]->getSAbundVector();
  18                 SAbundVector savB = shared[1]->getSAbundVector();
  19
  20                 double sumRanks = 0.0;
  21                 int numOTUS = shared[0]->getNumBins();
  22
  23                 //calc the 2 denominators
  24                 for (int i = 0; i < shared[0]->getNumBins(); i++) {
  25
  26                         int Aij = shared[0]->getAbundance(i);
  27                         int Bij = shared[1]->getAbundance(i);
  28
  29                         int rankA = savA.get(Aij);
  30                         int rankB = savB.get(Bij);
  31
  32                         sumRanks += ((rankA - rankB) * (rankA - rankB));
  33                 }
  34
  35                 data[0] = 1.0 - ((6 * sumRanks) / (float) (numOTUS * (numOTUS-1)));
  36
  37                 if (isnan(data[0]) || isinf(data[0])) { data[0] = 0; }
  38
  39                 return data;
  40         }
  41         catch(exception& e) {
  42                 m->errorOut(e, "Soergel", "getValues");
  43                 exit(1);
  44         }
  45 }
  46 /***********************************************************************/
  47