libpappsomspp
Library for mass spectrometry
tracedetectionzivy.h
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1 
2 /*******************************************************************************
3  * Copyright (c) 2015 Olivier Langella <Olivier.Langella@moulon.inra.fr>.
4  *
5  * This file is part of the PAPPSOms++ library.
6  *
7  * PAPPSOms++ is free software: you can redistribute it and/or modify
8  * it under the terms of the GNU General Public License as published by
9  * the Free Software Foundation, either version 3 of the License, or
10  * (at your option) any later version.
11  *
12  * PAPPSOms++ is distributed in the hope that it will be useful,
13  * but WITHOUT ANY WARRANTY; without even the implied warranty of
14  * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
15  * GNU General Public License for more details.
16  *
17  * You should have received a copy of the GNU General Public License
18  * along with PAPPSOms++. If not, see <http://www.gnu.org/licenses/>.
19  *
20  * Contributors:
21  * Olivier Langella <Olivier.Langella@moulon.inra.fr> - initial API and
22  *implementation
23  ******************************************************************************/
24 
25 
26 #pragma once
27 
28 
30 #include "../../processing/filters/filtermorpho.h"
31 
32 
33 namespace pappso
34 {
35 
37 {
38 
39  public:
40  TraceDetectionZivy(unsigned int smoothing_half_window_length,
41  unsigned int minmax_half_window_length,
42  unsigned int maxmin_half_window_length,
43  pappso_double detection_threshold_on_minmax,
44  pappso_double detection_threshold_on_maxmin);
45  virtual ~TraceDetectionZivy();
46 
47 
48  void setFilterMorphoMean(const FilterMorphoMean &smooth);
49  void setFilterMorphoMinMax(const FilterMorphoMinMax &m_minMax);
50  void setFilterMorphoMaxMin(const FilterMorphoMaxMin &maxMin);
51  void setDetectionThresholdOnMinmax(double detectionThresholdOnMinMax);
52  void setDetectionThresholdOnMaxmin(double detectionThresholdOnMaxMin);
53 
54  unsigned int getSmoothingHalfEdgeWindows() const;
55  unsigned int getMaxMinHalfEdgeWindows() const;
56 
57  unsigned int getMinMaxHalfEdgeWindows() const;
58  pappso_double getDetectionThresholdOnMinmax() const;
59  pappso_double getDetectionThresholdOnMaxmin() const;
60 
61  void detect(const Trace &xic,
63  bool remove_peak_base) const override;
64 
65 
66  private:
72 };
73 
74 } // namespace pappso
transform the trace with the maximum of the minimum equivalent of the erode filter for pictures
Definition: filtermorpho.h:138
mean filter apply mean of y values inside the window : this results in a kind of smoothing
Definition: filtermorpho.h:210
transform the trace with the minimum of the maximum equivalent of the dilate filter for pictures
Definition: filtermorpho.h:118
pappso_double m_detectionThresholdOnMaxMin
pappso_double m_detectionThresholdOnMinMax
A simple container of DataPoint instances.
Definition: trace.h:148
#define PMSPP_LIB_DECL
tries to keep as much as possible monoisotopes, removing any possible C13 peaks and changes multichar...
Definition: aa.cpp:39
double pappso_double
A type definition for doubles.
Definition: types.h:49