PILISScoring.h

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//                   OpenMS -- Open-Source Mass Spectrometry
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// Copyright The OpenMS Team -- Eberhard Karls University Tuebingen,
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// $Maintainer: Andreas Bertsch $
// $Authors: Andreas Bertsch $
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#ifndef OPENMS_ANALYSIS_ID_PILISSCORING_H
#define OPENMS_ANALYSIS_ID_PILISSCORING_H

#include <OpenMS/METADATA/PeptideIdentification.h>
#include <OpenMS/DATASTRUCTURES/DefaultParamHandler.h>
#include <OpenMS/DATASTRUCTURES/Map.h>
#include <OpenMS/KERNEL/StandardTypes.h>

#include <vector>

namespace OpenMS
{
  class OPENMS_DLLAPI PILISScoring :
    public DefaultParamHandler
  {

public:


    PILISScoring();

    PILISScoring(const PILISScoring & source);

    virtual ~PILISScoring();

    PILISScoring & operator=(const PILISScoring & source);


    void getScores(std::vector<PeptideIdentification> & ids);

    void getScore(PeptideIdentification & id);

protected:

    void getFitParameter_(double & slope, double & intercept, const std::vector<double> & scores, double threshold);

    void getSurvivalFunction_(Map<UInt, double> & points, std::vector<DPosition<2> > & survival_function);

    void getScore_(PeptideIdentification & id, double global_slope, double global_intercept);

  };
}

#endif