+++ /dev/null
-/*
- * mempearson.cpp
- * Mothur
- *
- * Created by westcott on 12/17/10.
- * Copyright 2010 Schloss Lab. All rights reserved.
- *
- */
-
-#include "mempearson.h"
-
-/***********************************************************************/
-EstOutput MemPearson::getValues(vector<SharedRAbundVector*> shared) {
- try {
- data.resize(1,0);
-
- int nonZeroA = 0;
- int nonZeroB = 0;
- int numOTUS = shared[0]->getNumBins();
-
- //for each otu
- for (int i = 0; i < shared[0]->getNumBins(); i++) {
- if (shared[0]->getAbundance(i) != 0) { nonZeroA++; }
- if (shared[1]->getAbundance(i) != 0) { nonZeroB++; }
- }
-
- double numTerm = 0.0;
- double denomTerm1 = 0.0;
- double denomTerm2 = 0.0;
- double averageA = nonZeroA / (float) numOTUS;
- double averageB = nonZeroB / (float) numOTUS;
-
- for (int i = 0; i < shared[0]->getNumBins(); i++) {
- int Aij = shared[0]->getAbundance(i);
- int Bij = shared[1]->getAbundance(i);
-
- if (Aij > 0) { Aij = 1; }
- if (Bij > 0) { Bij = 1; }
-
- numTerm += ((Aij - averageA) * (Bij - averageB));
- denomTerm1 += ((Aij - averageA) * (Aij - averageA));
- denomTerm2 += ((Bij - averageB) * (Bij - averageB));
- }
-
- denomTerm1 = sqrt(denomTerm1);
- denomTerm2 = sqrt(denomTerm2);
-
- double denom = denomTerm1 * denomTerm2;
-
- if (denom != 0) {
- data[0] = (numTerm / denom);
- }else {
- data[0] = 1.0;
- }
-
- if (isnan(data[0]) || isinf(data[0])) { data[0] = 0; }
-
- return data;
- }
- catch(exception& e) {
- m->errorOut(e, "MemPearson", "getValues");
- exit(1);
- }
-}
-/***********************************************************************/
-