structpearson.cpp

   1 /*
   2  *  structpearson.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 "structpearson.h"
  11
  12 /***********************************************************************/
  13 EstOutput StructPearson::getValues(vector<SharedRAbundVector*> shared) {
  14         try {
  15                 data.resize(1,0);
  16
  17                 double sumA = 0.0;
  18                 double sumB = 0.0;
  19                 int numOTUS = shared[0]->getNumBins();
  20
  21                 for (int i = 0; i < shared[0]->getNumBins(); i++) {
  22                         sumA += shared[0]->getAbundance(i);
  23                         sumB += shared[1]->getAbundance(i);
  24                 }
  25
  26                 double numTerm1 = 0.0;
  27                 double numTerm2 = 0.0;
  28                 double denomTerm1 = 0.0;
  29                 double denomTerm2 = 0.0;
  30
  31                 for (int i = 0; i < shared[0]->getNumBins(); i++) {
  32                         int Aij =  shared[0]->getAbundance(i);
  33                         int Bij =  shared[1]->getAbundance(i);
  34
  35                         numTerm1 += (Aij - (sumA / (float) numOTUS));
  36                         numTerm2 += (Bij - (sumB / (float) numOTUS));
  37
  38                         denomTerm1 += ((Aij - (sumA / (float) numOTUS)) * (Aij - (sumA / (float) numOTUS)));
  39                         denomTerm2 += ((Bij - (sumB / (float) numOTUS)) * (Bij - (sumB / (float) numOTUS)));
  40                 }
  41
  42                 denomTerm1 = sqrt(denomTerm1);
  43                 denomTerm2 = sqrt(denomTerm2);
  44
  45                 double denom = denomTerm1 * denomTerm2;
  46                 double numerator = numTerm1 * numTerm2;
  47
  48                 data[0] = 1.0 - (numerator / denom);
  49
  50                 if (isnan(data[0]) || isinf(data[0])) { data[0] = 0; }
  51
  52                 return data;
  53         }
  54         catch(exception& e) {
  55                 m->errorOut(e, "StructPearson", "getValues");
  56                 exit(1);
  57         }
  58 }
  59 /***********************************************************************/