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[mothur.git] / sharedmorisitahorn.cpp

diff --git a/sharedmorisitahorn.cpp b/sharedmorisitahorn.cpp
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+/*
+ *  sharedmorisitahorn.cpp
+ *  Mothur
+ *
+ *  Created by Sarah Westcott on 3/24/09.
+ *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
+ *
+ */
+
+#include "sharedmorisitahorn.h"
+
+/***********************************************************************/
+EstOutput MorHorn::getValues(vector<SharedRAbundVector*> shared) {
+       try {   
+               data.resize(1,0);
+               
+               double Atotal, Btotal, tempA, tempB;
+               Atotal = 0; Btotal = 0; 
+               double  morhorn, sumSharedA, sumSharedB, a, b, d;
+               morhorn = 0.0; sumSharedA = 0.0; sumSharedB = 0.0; a = 0.0; b = 0.0; d = 0.0;
+               
+               //get the total values we need to calculate the theta denominator sums
+               for (int i = 0; i < shared[0]->getNumBins(); i++) {
+                       //store in temps to avoid multiple repetitive function calls
+                       Atotal += shared[0]->getAbundance(i);
+                       Btotal += shared[1]->getAbundance(i);
+               }
+               
+               //calculate the denominator sums
+               for (int j = 0; j < shared[0]->getNumBins(); j++) {
+                       //store in temps to avoid multiple repetitive function calls
+                       tempA = shared[0]->getAbundance(j);
+                       tempB = shared[1]->getAbundance(j);
+                       float relA = tempA / Atotal;
+                       float relB = tempB / Btotal;
+                       
+                       a += relA * relA;
+                       b += relB * relB;
+                       d += relA * relB;
+               }
+
+               morhorn = 1- (2 * d) / (a + b);
+
+               if (isnan(morhorn) || isinf(morhorn)) { morhorn = 1; }
+               
+               data[0] = morhorn;
+               
+               return data;
+       }
+       catch(exception& e) {
+               m->errorOut(e, "MorHorn", "getValues");
+               exit(1);
+       }
+}
+
+/***********************************************************************/