/usr/include/libpwiz/pwiz/analysis/common/CwtPeakDetector.hpp is in libpwiz-dev 3.0.9393-1+b2.
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// $Id: CwtPeakDetector.hpp 6389 2014-06-13 19:46:19Z frenchwr $
//
//
// Original author: William French <william.r.french <a.t> vanderbilt.edu>
//
// Copyright 2008 Vanderbilt University - Nashville, TN 37232
//
// Licensed under the Apache License, Version 2.0 (the "License");
// you may not use this file except in compliance with the License.
// You may obtain a copy of the License at
//
// http://www.apache.org/licenses/LICENSE-2.0
//
// Unless required by applicable law or agreed to in writing, software
// distributed under the License is distributed on an "AS IS" BASIS,
// WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
// See the License for the specific language governing permissions and
// limitations under the License.
//
#ifndef _CWTPEAKDETECTOR_HPP_
#define _CWTPEAKDETECTOR_HPP_
// custom type for storing ridge line info
typedef struct {
int Col;
int Row;
} ridgeLine;
#include "PeakDetector.hpp"
namespace pwiz {
namespace analysis {
struct PWIZ_API_DECL CwtPeakDetector : public PeakDetector
{
CwtPeakDetector(double minSnr, int fixedPeaksKeep, double mzTol );
virtual void detect(const std::vector<double>& x, const std::vector<double>& y,
std::vector<double>& xPeakValues, std::vector<double>& yPeakValues,
std::vector<Peak>* peaks = NULL);
void getScales( const std::vector <double> &, const std::vector <double> &, std::vector <std::vector< std::vector<int> > > &, std::vector <double> &) const;
void calcCorrelation( const std::vector <double> &, const std::vector <double> &, const std::vector <std::vector<std::vector<int> > > &, const std::vector <double> &, std::vector < std::vector <double> > &) const;
void getPeakLines(const std::vector < std::vector <double> > &, const std::vector <double> &, std::vector <ridgeLine> &, std::vector <double> &) const;
void refinePeaks( const std::vector <double> &, const std::vector <double> &, const std::vector <ridgeLine> &, const std::vector <double> &, std::vector <double> &, std::vector <double> &, std::vector <double> &) const;
private:
// parameters
double minSnr_;
int fixedPeaksKeep_;
double mzTol_;
int nScales;
std::vector<double> scalings; // how to scale the wavelet widths, unchanged once it's initialized
};
} // namespace analysis
} // namespace pwiz
// Helper functions used by detect. The client does not need to see these.
void ricker2d(const std::vector <double> &, const int, const int, const int, const double, const double, const double, std::vector <double> &);
int getColLowBound(const std::vector <double> &,const double);
int getColHighBound(const std::vector <double> &,const double);
double scoreAtPercentile( const double, const std::vector <double> &, const int );
double convertColToMZ( const std::vector <double> &, const int );
#endif // _CWTPEAKDETECTOR_HPP_
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