#include "spearman.h"
/***********************************************************************/
+
EstOutput Spearman::getValues(vector<SharedRAbundVector*> shared) {
try {
data.resize(1,0);
double sumRanks = 0.0;
int numOTUS = shared[0]->getNumBins();
- //calc the 2 denominators
- for (int i = 0; i < shared[0]->getNumBins(); i++) {
+ vector<double> rankVectorA(savA.getMaxRank()+1, 0);
+ int currentRankA = 0;
+ for(int i=savA.getMaxRank();i>0;i--){
+ int numWithAbundanceI = savA.get(i);
+
+ if(numWithAbundanceI > 1){ rankVectorA[i] = (currentRankA + 1 + currentRankA + numWithAbundanceI) / 2.0; }
+ else { rankVectorA[i] = currentRankA+numWithAbundanceI; }
+ currentRankA += numWithAbundanceI;
+ }
+ rankVectorA[0] = (numOTUS + currentRankA + 1) / 2.0;
+
+
+ vector<double> rankVectorB(savB.getMaxRank()+1, 0);
+ int currentRankB = 0;
+ for(int i=savB.getMaxRank();i>0;i--){
+ int numWithAbundanceI = savB.get(i);
+ if(numWithAbundanceI > 1){ rankVectorB[i] = (currentRankB + 1 + currentRankB + numWithAbundanceI) / 2.0; }
+ else { rankVectorB[i] = currentRankB+numWithAbundanceI; }
+ currentRankB += numWithAbundanceI;
+ }
+ rankVectorB[0] = (numOTUS + currentRankB + 1) / 2.0;
+
+
+
+ for (int i = 0; i < shared[0]->getNumBins(); i++) {
int Aij = shared[0]->getAbundance(i);
int Bij = shared[1]->getAbundance(i);
- int rankA = savA.get(Aij);
- int rankB = savB.get(Bij);
+ float rankA = rankVectorA[Aij];
+ float rankB = rankVectorB[Bij];
sumRanks += ((rankA - rankB) * (rankA - rankB));
}
-
- data[0] = 1.0 - ((6 * sumRanks) / (float) (numOTUS * (numOTUS-1)));
+ data[0] = 1.0 - ((6 * sumRanks) / (float) (numOTUS * ((numOTUS*numOTUS)-1)));
if (isnan(data[0]) || isinf(data[0])) { data[0] = 0; }
return data;
}
catch(exception& e) {
- m->errorOut(e, "Soergel", "getValues");
+ m->errorOut(e, "Spearman", "getValues");
exit(1);
}
}
+
/***********************************************************************/