OpenMS  3.0.0
PercolatorOutfile.h
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31 // $Maintainer: Hendrik Weisser $
32 // $Authors: Hendrik Weisser $
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34 
35 #pragma once
36 
41 
42 #include <vector>
43 
44 namespace OpenMS
45 {
46 
52  class OPENMS_DLLAPI PercolatorOutfile
53  {
54 
55  public:
56 
58  enum ScoreType { QVALUE, POSTERRPROB, SCORE, SIZE_OF_SCORETYPE };
59 
61  static const std::string score_type_names[SIZE_OF_SCORETYPE];
62 
64  static enum ScoreType getScoreType(String score_type_name);
65 
68 
70  void load(const String& filename, ProteinIdentification& proteins,
71  std::vector<PeptideIdentification>& peptides,
72  SpectrumMetaDataLookup& lookup,
73  enum ScoreType output_score = QVALUE);
74 
75  private:
77  void getPeptideSequence_(String peptide, AASequence& seq) const;
78 
80  void resolveMisassignedNTermMods_(String& peptide) const;
81  };
82 
83 } // namespace OpenMS
84 
OpenMS::String
A more convenient string class.
Definition: String.h:58
OpenMS::PercolatorOutfile::ScoreType
ScoreType
Types of Percolator scores.
Definition: PercolatorOutfile.h:58
OpenMS::PercolatorOutfile
Class for reading Percolator tab-delimited output files.
Definition: PercolatorOutfile.h:52
SpectrumMetaDataLookup.h
OpenMS::ProteinIdentification
Representation of a protein identification run.
Definition: ProteinIdentification.h:70
OpenMS
Main OpenMS namespace.
Definition: FeatureDeconvolution.h:47
ProteinIdentification.h
MSExperiment.h
OpenMS::SpectrumMetaDataLookup
Helper class for looking up spectrum meta data.
Definition: SpectrumMetaDataLookup.h:142
OpenMS::AASequence
Representation of a peptide/protein sequence.
Definition: AASequence.h:111
PeptideIdentification.h