IsobaricQuantifier.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: Timo Sachsenberg $
// $Authors: Stephan Aiche, Chris Bielow $
// --------------------------------------------------------------------------

#pragma once

#include <OpenMS/DATASTRUCTURES/DefaultParamHandler.h>
#include <OpenMS/ANALYSIS/QUANTITATION/IsobaricQuantifierStatistics.h>

namespace OpenMS
{
  class IsobaricQuantitationMethod;
  class ConsensusMap;

  class OPENMS_DLLAPI IsobaricQuantifier :
    public DefaultParamHandler
  {
public:
    explicit IsobaricQuantifier(const IsobaricQuantitationMethod* const quant_method);

    IsobaricQuantifier(const IsobaricQuantifier& other);

    IsobaricQuantifier& operator=(const IsobaricQuantifier& rhs);

    void quantify(const ConsensusMap& consensus_map_in, ConsensusMap& consensus_map_out);

protected:
    void setDefaultParams_();

    void updateMembers_() override;

private:
    IsobaricQuantifierStatistics stats_;

    const IsobaricQuantitationMethod* quant_method_;

    bool isotope_correction_enabled_;

    bool normalization_enabled_;

    void computeLabelingStatistics_(ConsensusMap& consensus_map_out);
  };
} // namespace