Scoring.h

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#ifndef OPENMS_ANALYSIS_OPENSWATH_OPENSWATHALGO_ALGO_SCORING_H
#define OPENMS_ANALYSIS_OPENSWATH_OPENSWATHALGO_ALGO_SCORING_H

#include <numeric>
#include <map>
#include <vector>

#include <OpenMS/ANALYSIS/OPENSWATH/OPENSWATHALGO/OpenSwathAlgoConfig.h>

namespace OpenSwath
{

  namespace Scoring
  {
    typedef std::map<int, double> XCorrArrayType;

    OPENSWATHALGO_DLLAPI double NormalizedManhattanDist(double x[], double y[], int n);

    OPENSWATHALGO_DLLAPI double RootMeanSquareDeviation(double x[], double y[], int n);

    OPENSWATHALGO_DLLAPI double SpectralAngle(double x[], double y[], int n);

    OPENSWATHALGO_DLLAPI XCorrArrayType calcxcorr_legacy_mquest_(std::vector<double>& data1,
                                                  std::vector<double>& data2, bool normalize);

    OPENSWATHALGO_DLLAPI XCorrArrayType normalizedCrossCorrelation(std::vector<double>& data1,
                                                            std::vector<double>& data2, int maxdelay, int lag);

    OPENSWATHALGO_DLLAPI XCorrArrayType calculateCrossCorrelation(std::vector<double>& data1,
                                                      std::vector<double>& data2, int maxdelay, int lag);

    OPENSWATHALGO_DLLAPI XCorrArrayType::iterator xcorrArrayGetMaxPeak(XCorrArrayType & array);

    OPENSWATHALGO_DLLAPI void standardize_data(std::vector<double>& data);

    OPENSWATHALGO_DLLAPI void normalize_sum(double x[], unsigned int n);

  }
}

#endif // OPENMS_ANALYSIS_OPENSWATH_OPENSWATHALGO_ALGO_SCORING_H