structchord.cpp

   1 /*
   2  *  structchord.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 "structchord.h"
  11
  12 /***********************************************************************/
  13 EstOutput StructChord::getValues(vector<SharedRAbundVector*> shared) {
  14         try {
  15                 data.resize(1,0);
  16
  17                 double sumAj2 = 0.0;
  18                 double sumBj2 = 0.0;
  19
  20                 //calc the 2 denominators
  21                 for (int i = 0; i < shared[0]->getNumBins(); i++) {
  22
  23                         int Aij = shared[0]->getAbundance(i);
  24                         int Bij = shared[1]->getAbundance(i);
  25
  26                         //(Aij) ^ 2
  27                         sumAj2 += (Aij * Aij);
  28                         sumBj2 += (Bij * Bij);
  29                 }
  30
  31                 sumAj2 = sqrt(sumAj2);
  32                 sumBj2 = sqrt(sumBj2);
  33
  34                 //calc sum
  35                 double sum = 0.0;
  36                 for (int i = 0; i < shared[0]->getNumBins(); i++) {
  37
  38                         int Aij = shared[0]->getAbundance(i);
  39                         int Bij = shared[1]->getAbundance(i);
  40
  41                         sum += (((Aij / sumAj2) - (Bij / sumBj2)) * ((Aij / sumAj2) - (Bij / sumBj2)));
  42                 }
  43
  44                 data[0] = sqrt(sum);
  45
  46                 if (isnan(data[0]) || isinf(data[0])) { data[0] = 0; }
  47
  48                 return data;
  49         }
  50         catch(exception& e) {
  51                 m->errorOut(e, "StructChord", "getValues");
  52                 exit(1);
  53         }
  54 }
  55 /***********************************************************************/