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DataAccessHelper.h
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34 
35 #ifndef OPENMS_ANALYSIS_OPENSWATH_DATAACCESS_DATAACCESSHELPER_H
36 #define OPENMS_ANALYSIS_OPENSWATH_DATAACCESS_DATAACCESSHELPER_H
37 
38 #include <fstream>
39 
40 #include <boost/numeric/conversion/cast.hpp>
41 
47 
48 namespace OpenMS
49 {
54  class OPENMS_DLLAPI OpenSwathDataAccessHelper
55  {
56 public:
58  static void convertToOpenMSSpectrum(const OpenSwath::SpectrumPtr sptr, OpenMS::MSSpectrum<> & spectrum);
59 
61  static OpenSwath::SpectrumPtr convertToSpectrumPtr(const OpenMS::MSSpectrum<> & spectrum);
62 
64  static void convertToOpenMSChromatogram(OpenMS::MSChromatogram<> & chromatogram, const OpenSwath::ChromatogramPtr cptr);
65 
67  static void convertTargetedExp(const OpenMS::TargetedExperiment & transition_exp_, OpenSwath::LightTargetedExperiment & transition_exp);
68 
70  static void convertTargetedPeptide(const TargetedExperiment::Peptide& pep, OpenSwath::LightPeptide & p);
71 
73  static void convertPeptideToAASequence(const OpenSwath::LightPeptide & peptide, AASequence & aa_sequence);
74 
75  };
76 
77 } //end namespace OpenMS
78 
79 #endif
The representation of a chromatogram.
Definition: MSChromatogram.h:52
boost::shared_ptr< Spectrum > SpectrumPtr
Definition: openswathalgo/include/OpenMS/ANALYSIS/OPENSWATH/OPENSWATHALGO/DATAACCESS/DataStructures.h:232
Representation of a peptide/protein sequence.
Definition: AASequence.h:70
Main OpenMS namespace.
Definition: FeatureDeconvolution.h:47
Definition: TransitionExperiment.h:101
The representation of a 1D spectrum.
Definition: MSSpectrum.h:66
Several helpers to convert OpenMS datastructures to structures that implement the OpenSWATH interface...
Definition: DataAccessHelper.h:54
boost::shared_ptr< Chromatogram > ChromatogramPtr
Definition: openswathalgo/include/OpenMS/ANALYSIS/OPENSWATH/OPENSWATHALGO/DATAACCESS/DataStructures.h:154
This class stores an prediction of an SRM/MRM transition.
Definition: TargetedExperiment.h:53
Definition: TransitionExperiment.h:125
Definition: TargetedExperimentHelper.h:211

OpenMS / TOPP release 2.0.0 Documentation generated on Fri May 29 2015 17:20:22 using doxygen 1.8.9.1