MapAlignmentTransformer.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: Stephan Aiche $
// $Authors: Stephan Aiche $
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#ifndef OPENMS_ANALYSIS_MAPMATCHING_MAPALIGNMENTTRANSFORMER_H
#define OPENMS_ANALYSIS_MAPMATCHING_MAPALIGNMENTTRANSFORMER_H

#include <vector>
#include <OpenMS/config.h>

#include <OpenMS/KERNEL/MSExperiment.h>
#include <OpenMS/KERNEL/FeatureMap.h>

namespace OpenMS
{

  class TransformationDescription;
  class ConsensusMap;
  class PeptideIdentification;
  class ConsensusFeature;

  class OPENMS_DLLAPI MapAlignmentTransformer
  {

public:
    static void transformPeakMaps(std::vector<MSExperiment<> > & maps, const std::vector<TransformationDescription> & given_trafos);

    static void transformFeatureMaps(std::vector<FeatureMap<> > & maps, const std::vector<TransformationDescription> & given_trafos);

    static void transformConsensusMaps(std::vector<ConsensusMap> & maps, const std::vector<TransformationDescription> & given_trafos);

    static void transformPeptideIdentifications(std::vector<std::vector<PeptideIdentification> > & maps, const std::vector<TransformationDescription> & given_trafos);


    static void transformSinglePeakMap(MSExperiment<> & msexp, const TransformationDescription & trafo);

    static void transformSingleFeatureMap(FeatureMap<> & fmap, const TransformationDescription & trafo);

    static void transformSingleConsensusMap(ConsensusMap & cmap, const TransformationDescription & trafo);

    static void transformSinglePeptideIdentification(std::vector<PeptideIdentification> & pepids, const TransformationDescription & trafo);

private:

    static void applyToFeature_(Feature & feature, const TransformationDescription & trafo);

    static void applyToBaseFeature_(BaseFeature & feature, const TransformationDescription & trafo);

    static void applyToConsensusFeature_(ConsensusFeature & feature, const TransformationDescription & trafo);

  };
} // namespace OpenMS

#endif // OPENMS_ANALYSIS_MAPMATCHING_MAPALIGNMENTTRANSFORMER_H