Medical Imaging Interaction Toolkit  2022.10.99-748b94b4
Medical Imaging Interaction Toolkit
mitkNavigationDataLandmarkTransformFilter.h
Go to the documentation of this file.
1 /*============================================================================
2 
3 The Medical Imaging Interaction Toolkit (MITK)
4 
5 Copyright (c) German Cancer Research Center (DKFZ)
6 All rights reserved.
7 
8 Use of this source code is governed by a 3-clause BSD license that can be
9 found in the LICENSE file.
10 
11 ============================================================================*/
12 
13 #ifndef MITKNavigationDataLandmarkTransformFilter_H_HEADER_INCLUDED_
14 #define MITKNavigationDataLandmarkTransformFilter_H_HEADER_INCLUDED_
15 
17 #include <mitkPointSet.h>
18 #include <itkLandmarkBasedTransformInitializer.h>
19 #include <itkQuaternionRigidTransform.h>
20 #include <itkImage.h>
21 
22 
23 namespace mitk {
24 
43  {
44  public:
46  itkFactorylessNewMacro(Self);
47  itkCloneMacro(Self);
48 
49  typedef std::vector<mitk::ScalarType> ErrorVector;
50  typedef itk::VersorRigid3DTransform< double > LandmarkTransformType;
51 
56  virtual void SetSourceLandmarks(mitk::PointSet::Pointer sourcePointSet);
57 
62  virtual void SetTargetLandmarks(mitk::PointSet::Pointer targetPointSet);
63 
64  virtual bool IsInitialized() const;
65 
70  mitk::ScalarType GetFRE() const;
71 
76  mitk::ScalarType GetFREStdDev() const;
77 
82  mitk::ScalarType GetRMSError() const;
83 
88  mitk::ScalarType GetMinError() const;
89 
94  mitk::ScalarType GetMaxError() const;
95 
100  mitk::ScalarType GetAbsMaxError() const;
101 
106  const ErrorVector& GetErrorVector() const;
107 
108  itkSetMacro(UseICPInitialization, bool);
109  itkGetMacro(UseICPInitialization, bool);
110  itkBooleanMacro(UseICPInitialization);
111 
112  itkGetConstObjectMacro(LandmarkTransform, LandmarkTransformType);
113 
114  protected:
115  typedef itk::Image< signed short, 3> ImageType; // only because itk::LandmarkBasedTransformInitializer must be templated over two imagetypes
116 
117  typedef itk::LandmarkBasedTransformInitializer< LandmarkTransformType, ImageType, ImageType > TransformInitializerType;
118  typedef TransformInitializerType::LandmarkPointContainer LandmarkPointContainer;
119  typedef itk::QuaternionRigidTransform<double> QuaternionTransformType;
120 
126 
131  void GenerateData() override;
132 
146  bool FindCorrespondentLandmarks(LandmarkPointContainer& sources, const LandmarkPointContainer& targets) const;
147 
154  void InitializeLandmarkTransform(LandmarkPointContainer& sources, const LandmarkPointContainer& targets);
155 
159  void UpdateLandmarkTransform(const LandmarkPointContainer &sources, const LandmarkPointContainer &targets);
160  void AccumulateStatistics(ErrorVector& vector);
161 
162  void PrintSelf( std::ostream& os, itk::Indent indent ) const override;
163 
170 
173  TransformInitializerType::Pointer m_LandmarkTransformInitializer;
174  LandmarkTransformType::Pointer m_LandmarkTransform;
175 
176  QuaternionTransformType::Pointer m_QuatLandmarkTransform;
177  QuaternionTransformType::Pointer m_QuatTransform;
178 
181  };
182 } // namespace mitk
183 #endif /* MITKNavigationDataLandmarkTransformFilter_H_HEADER_INCLUDED_ */
MITKIGT_EXPORT
#define MITKIGT_EXPORT
Definition: MitkIGTExports.h:15
mitk::NavigationDataLandmarkTransformFilter::m_LandmarkTransformInitializer
TransformInitializerType::Pointer m_LandmarkTransformInitializer
landmark based transform initializer
Definition: mitkNavigationDataLandmarkTransformFilter.h:173
mitk::NavigationDataLandmarkTransformFilter::QuaternionTransformType
itk::QuaternionRigidTransform< double > QuaternionTransformType
Definition: mitkNavigationDataLandmarkTransformFilter.h:119
mitk::NavigationDataLandmarkTransformFilter::m_ErrorMean
mitk::ScalarType m_ErrorMean
Fiducial Registration Error.
Definition: mitkNavigationDataLandmarkTransformFilter.h:164
mitk::NavigationDataLandmarkTransformFilter::ErrorVector
std::vector< mitk::ScalarType > ErrorVector
Definition: mitkNavigationDataLandmarkTransformFilter.h:47
mitk::NavigationDataLandmarkTransformFilter::m_SourcePoints
LandmarkPointContainer m_SourcePoints
positions of the source points
Definition: mitkNavigationDataLandmarkTransformFilter.h:171
itk::SmartPointer< Self >
mitk::NavigationDataLandmarkTransformFilter::LandmarkTransformType
itk::VersorRigid3DTransform< double > LandmarkTransformType
Definition: mitkNavigationDataLandmarkTransformFilter.h:50
mitk::NavigationDataLandmarkTransformFilter::m_ErrorMin
mitk::ScalarType m_ErrorMin
minimum registration error / best fitting landmark distance
Definition: mitkNavigationDataLandmarkTransformFilter.h:167
mitk::NavigationDataToNavigationDataFilter
NavigationDataToNavigationDataFilter is the base class of all filters that receive NavigationDatas as...
Definition: mitkNavigationDataToNavigationDataFilter.h:32
mitk::NavigationDataLandmarkTransformFilter
NavigationDataLandmarkTransformFilter applies a itk-landmark-transformation defined by source and tar...
Definition: mitkNavigationDataLandmarkTransformFilter.h:42
mitkPointSet.h
mitk
DataCollection - Class to facilitate loading/accessing structured data.
Definition: RenderingTests.dox:1
mitk::NavigationDataLandmarkTransformFilter::m_LandmarkTransform
LandmarkTransformType::Pointer m_LandmarkTransform
transform calculated from source and target points
Definition: mitkNavigationDataLandmarkTransformFilter.h:174
mitk::NavigationDataLandmarkTransformFilter::ImageType
itk::Image< signed short, 3 > ImageType
returns the current landmark transform
Definition: mitkNavigationDataLandmarkTransformFilter.h:112
mitk::NavigationDataLandmarkTransformFilter::m_ErrorAbsMax
mitk::ScalarType m_ErrorAbsMax
the absolute maximum registration error
Definition: mitkNavigationDataLandmarkTransformFilter.h:169
mitk::NavigationDataLandmarkTransformFilter::m_ErrorMax
mitk::ScalarType m_ErrorMax
maximum registration error / worst fitting landmark distance
Definition: mitkNavigationDataLandmarkTransformFilter.h:168
mitk::NavigationDataLandmarkTransformFilter::m_UseICPInitialization
bool m_UseICPInitialization
find source <--> target point correspondences with iterative closest point optimization
Definition: mitkNavigationDataLandmarkTransformFilter.h:180
mitk::NavigationDataLandmarkTransformFilter::LandmarkPointContainer
TransformInitializerType::LandmarkPointContainer LandmarkPointContainer
Definition: mitkNavigationDataLandmarkTransformFilter.h:118
mitk::NavigationDataLandmarkTransformFilter::m_ErrorRMS
mitk::ScalarType m_ErrorRMS
Root Mean Square of the registration error.
Definition: mitkNavigationDataLandmarkTransformFilter.h:166
mitk::NavigationDataLandmarkTransformFilter::m_TargetPoints
LandmarkPointContainer m_TargetPoints
positions of the target points
Definition: mitkNavigationDataLandmarkTransformFilter.h:172
mitk::NavigationDataLandmarkTransformFilter::m_ErrorStdDev
mitk::ScalarType m_ErrorStdDev
standard deviation of the Fiducial Registration Error
Definition: mitkNavigationDataLandmarkTransformFilter.h:165
mitk::NavigationDataLandmarkTransformFilter::m_QuatLandmarkTransform
QuaternionTransformType::Pointer m_QuatLandmarkTransform
transform needed to rotate orientation
Definition: mitkNavigationDataLandmarkTransformFilter.h:176
mitkNavigationDataToNavigationDataFilter.h
mitk::NavigationDataLandmarkTransformFilter::m_Errors
ErrorVector m_Errors
stores the euclidean distance of each transformed source landmark and its respective target landmark
Definition: mitkNavigationDataLandmarkTransformFilter.h:179
mitkClassMacro
#define mitkClassMacro(className, SuperClassName)
Definition: mitkCommon.h:36
mitk::NavigationDataLandmarkTransformFilter::m_QuatTransform
QuaternionTransformType::Pointer m_QuatTransform
further transform needed to rotate orientation
Definition: mitkNavigationDataLandmarkTransformFilter.h:177
mitk::NavigationDataLandmarkTransformFilter::TransformInitializerType
itk::LandmarkBasedTransformInitializer< LandmarkTransformType, ImageType, ImageType > TransformInitializerType
Definition: mitkNavigationDataLandmarkTransformFilter.h:117
mitk::ScalarType
double ScalarType
Definition: mitkNumericConstants.h:20