OpenMS  2.8.0
SeedListGenerator.h
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31 // $Maintainer: Hendrik Weisser $
32 // $Authors: Hendrik Weisser $
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34 
35 #pragma once
36 
44 
45 #include <vector>
46 
47 namespace OpenMS
48 {
56  class OPENMS_DLLAPI SeedListGenerator
57  {
58 public:
59 
61  typedef std::vector<DPosition<2> > SeedList;
62 
63 
66 
67 
73  void generateSeedList(const PeakMap & experiment, SeedList & seeds);
74 
75 
83  void generateSeedList(std::vector<PeptideIdentification> & peptides,
84  SeedList & seeds, bool use_peptide_mass = false);
85 
86 
95  void generateSeedLists(const ConsensusMap & consensus,
96  Map<UInt64, SeedList> & seed_lists);
97 
98 
100  void convertSeedList(const SeedList & seeds, FeatureMap & features);
101 
102 
104  void convertSeedList(const FeatureMap & features, SeedList & seeds);
105 
106  };
107 
108 }
109 
A container for consensus elements.
Definition: ConsensusMap.h:90
A container for features.
Definition: FeatureMap.h:106
In-Memory representation of a mass spectrometry run.
Definition: MSExperiment.h:73
Map class based on the STL map (containing several convenience functions)
Definition: Map.h:52
Generate seed lists for feature detection.
Definition: SeedListGenerator.h:57
void generateSeedLists(const ConsensusMap &consensus, Map< UInt64, SeedList > &seed_lists)
Generate seed lists based on a consensus map.
std::vector< DPosition< 2 > > SeedList
List of seed positions.
Definition: SeedListGenerator.h:61
void convertSeedList(const SeedList &seeds, FeatureMap &features)
Convert a list of seed positions to a feature map (expected format for FeatureFinder)
void generateSeedList(std::vector< PeptideIdentification > &peptides, SeedList &seeds, bool use_peptide_mass=false)
Generate a seed list based on a list of peptide identifications.
void convertSeedList(const FeatureMap &features, SeedList &seeds)
Convert a feature map with seed positions back to a simple list.
SeedListGenerator()
Default constructor.
void generateSeedList(const PeakMap &experiment, SeedList &seeds)
Generate a seed list based on an MS experiment.
Main OpenMS namespace.
Definition: FeatureDeconvolution.h:47