ConsensusMapNormalizerAlgorithmMedian.h

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// Copyright (c) 2002-present, OpenMS Inc. -- EKU Tuebingen, ETH Zurich, and FU Berlin
// SPDX-License-Identifier: BSD-3-Clause
//
// --------------------------------------------------------------------------
// $Maintainer: Johannes Veit $
// $Authors: Johannes Junker $
// --------------------------------------------------------------------------
 
#pragma once
 
#include <OpenMS/KERNEL/ConsensusMap.h>
#include <OpenMS/ANALYSIS/MAPMATCHING/ConsensusMapNormalizerAlgorithmThreshold.h>
 
#include <map>
 
namespace OpenMS
{
 
  class OPENMS_DLLAPI ConsensusMapNormalizerAlgorithmMedian
  {
    friend class ConsensusMapNormalizerAlgorithmThreshold;
 
private:
    ConsensusMapNormalizerAlgorithmMedian(const ConsensusMapNormalizerAlgorithmMedian & copyin);
 
    ConsensusMapNormalizerAlgorithmMedian & operator=(const ConsensusMapNormalizerAlgorithmMedian & rhs);
 
public:
    ConsensusMapNormalizerAlgorithmMedian();
 
    virtual ~ConsensusMapNormalizerAlgorithmMedian();
 
    enum NormalizationMethod { NM_SCALE, NM_SHIFT };
 
    static void normalizeMaps(ConsensusMap & map, NormalizationMethod method, const std::string& acc_filter, const std::string& desc_filter);
 
    static Size computeMedians(const ConsensusMap & map, std::vector<double> & medians, const std::string& acc_filter, const std::string& desc_filter);
 
    static bool passesFilters_(ConsensusMap::ConstIterator cf_it, const ConsensusMap& map, const std::string& acc_filter, const std::string& desc_filter);
 
    static std::map<UInt64, Size> mapPositions_(const ConsensusMap& map);
 
    static Size mapPosition_(const std::map<UInt64, Size>& positions, UInt64 map_index);
  };
 
} // namespace OpenMS