| OpenMS 2.5.0

DetectabilitySimulation.h
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2 // OpenMS -- Open-Source Mass Spectrometry
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5 // ETH Zurich, and Freie Universitaet Berlin 2002-2020.
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30 // --------------------------------------------------------------------------
31 // $Maintainer: Timo Sachsenberg$
32 // $Authors: Stephan Aiche, Chris Bielow$
33 // --------------------------------------------------------------------------
34
35 #pragma once
36
37 #include <OpenMS/DATASTRUCTURES/DefaultParamHandler.h>
38 #include <OpenMS/SIMULATION/SimTypes.h>
39
40 namespace OpenMS
41 {
52 class OPENMS_DLLAPI DetectabilitySimulation :
53 public DefaultParamHandler
54 {
55
56 public:
60 DetectabilitySimulation();
62
64 DetectabilitySimulation(const DetectabilitySimulation& source);
65
67 ~DetectabilitySimulation() override;
69
71 DetectabilitySimulation& operator=(const DetectabilitySimulation& source);
72
81 void filterDetectability(SimTypes::FeatureMapSim& features);
82
83
84 void predictDetectabilities(std::vector<String>& peptides_vector, std::vector<double>& labels,
85 std::vector<double>& detectabilities);
86 private:
88 void setDefaultParams_();
89
91 void updateMembers_() override;
92
94 double min_detect_;
95
97 OpenMS::String dt_model_file_;
98
99 protected:
101 void svmFilter_(SimTypes::FeatureMapSim&);
102
104 void noFilter_(SimTypes::FeatureMapSim&);
105
106 };
107
108 }
109
OpenMS::String
A more convenient string class.
Definition: String.h:58
OpenMS::DefaultParamHandler
A base class for all classes handling default parameters.
Definition: DefaultParamHandler.h:91
SimTypes.h
OpenMS::DetectabilitySimulation
Simulates peptide detectability.
Definition: DetectabilitySimulation.h:52
OpenMS::FeatureMap
A container for features.
Definition: FeatureMap.h:95
OpenMS
Main OpenMS namespace.
Definition: FeatureDeconvolution.h:46
DefaultParamHandler.h
OpenMS::DetectabilitySimulation::min_detect_
double min_detect_
Minimum allowed detectability likelihood of a peptide.
Definition: DetectabilitySimulation.h:94
OpenMS::DetectabilitySimulation::dt_model_file_
OpenMS::String dt_model_file_
Name of the svm model file.
Definition: DetectabilitySimulation.h:97