- vector< vector<double> > generateStartingConfiguration(int); //pass in numNames, return axes
- int normalizeConfiguration(vector< vector<double> >&, int);
- vector<seqDist> satisfyMonotonicity(vector<seqDist>);
- double calculateStress(vector<seqDist>&, vector<seqDist>&, double&);
- vector< vector<double> > calculateStressGradientVector(vector<seqDist>&, vector<seqDist>&, double, double, vector< vector<double> >&);
- double calculateMagnitude(vector< vector<double> >&);
- double calculateStep(vector< vector<double> >&, vector< vector<double> >&, vector<double>&);
- vector< vector<double> > calculateNewConfiguration(double, vector< vector<double> >&, vector< vector<double> >&);
+ vector< vector<double> > nmdsCalc(vector< vector<double> >&, vector< vector<double> >&, double&);
+ vector< vector<double> > getConfiguration(vector< vector<double> >&, int);
+ vector< vector<double> > generateStartingConfiguration(int, int); //pass in numNames, return axes
+ int normalizeConfiguration(vector< vector<double> >&, int, int);
+ double calculateStress(vector< vector<double> >&, vector< vector<double> >&);