+++ /dev/null
-/*
- * memchi2.cpp
- * Mothur
- *
- * Created by westcott on 12/17/10.
- * Copyright 2010 Schloss Lab. All rights reserved.
- *
- */
-
-#include "memchi2.h"
-
-/***********************************************************************/
-EstOutput MemChi2::getValues(vector<SharedRAbundVector*> shared) {
- try {
- data.resize(1,0);
-
- int nonZeroA = 0;
- int nonZeroB = 0;
- int totalOtus = shared[0]->getNumBins();
- //int totalGroups = shared.size();
-
- //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 sum = 0.0;
- for (int i = 0; i < shared[0]->getNumBins(); i++) {
- int A = shared[0]->getAbundance(i);
- int B = shared[1]->getAbundance(i);
-
- if (A > 0) { A = 1; }
- if (B > 0) { B = 1; }
-
- double Aterm = A / (float) nonZeroA;
- double Bterm = B / (float) nonZeroB;
-
- int incidence = 0;
- for(int j=0;j<shared.size();j++){
- if(shared[j]->getAbundance(i) != 0){ incidence++; }
- }
-
- if(incidence != 0){
- sum += (((Aterm-Bterm)*(Aterm-Bterm))/incidence);
- }
- }
-
- data[0] = sqrt(totalOtus * sum);
-
- if (isnan(data[0]) || isinf(data[0])) { data[0] = 0; }
-
- return data;
- }
- catch(exception& e) {
- m->errorOut(e, "MemChi2", "getValues");
- exit(1);
- }
-}
-/***********************************************************************/
-