--- /dev/null
+/*
+ * sharedthetan.cpp
+ * Dotur
+ *
+ * Created by Sarah Westcott on 1/8/09.
+ * Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
+ *
+ */
+
+#include "sharedthetan.h"
+
+/***********************************************************************/
+EstOutput SharedThetaN::getValues(SharedRAbundVector* shared1, SharedRAbundVector* shared2) {
+ try {
+ data.resize(1,0);
+
+ int Atotal, Btotal, tempA, tempB;
+ Atotal = 0; Btotal = 0;
+ float numerator, denominator, thetaN, sumSharedA, sumSharedB, a, b, d;
+ numerator = 0.0; denominator = 0.0; thetaN = 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 < shared1->size(); i++) {
+ //store in temps to avoid multiple repetitive function calls
+ Atotal += shared1->getAbundance(i);
+ Btotal += shared2->getAbundance(i);
+ }
+
+ //calculate the theta denominator sums
+ for (int j = 0; j < shared1->size(); j++) {
+ //store in temps to avoid multiple repetitive function calls
+ tempA = shared1->getAbundance(j);
+ tempB = shared2->getAbundance(j);
+
+ //they are shared
+ if ((tempA != 0) && (tempB != 0)) {
+ if (Atotal != 0) { sumSharedA = (tempA / (float)Atotal); }
+ if (Btotal != 0) { sumSharedB = (tempB / (float)Btotal); }
+
+ a += sumSharedA;
+ b += sumSharedB;
+ }
+ }
+
+ thetaN = (a * b) / (a + b - (a * b));
+
+ if (isnan(thetaN) || isinf(thetaN)) { thetaN = 0; }
+
+ data[0] = thetaN;
+
+ return data;
+ }
+ catch(exception& e) {
+ cout << "Standard Error: " << e.what() << " has occurred in the SharedThetaN class Function getValues. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+ exit(1);
+ }
+ catch(...) {
+ cout << "An unknown error has occurred in the SharedThetaN class Function getValues. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+ exit(1);
+ }
+}
+/***********************************************************************/