- vector< vector<float> > getQuantiles(int, int);
- vector<float> calcFreq(vector<Sequence*>);
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- vector<Sequence> findPairs(int, int);
- vector<int> findWindows(Sequence*, int, int, int&);
- vector<float> calcObserved(Sequence*, Sequence, vector<int>, int);
- vector<float> calcExpected(vector<float>, float);
- vector<float> findQav(vector<int>, int);
- float calcDE(vector<float>, vector<float>);
- float calcDist(Sequence*, Sequence, int, int);
- float getCoef(vector<float>, vector<float>);
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- void createProcessesSpots();
- void createProcesses();