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ITK
4.2.0
Insight Segmentation and Registration Toolkit
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ITK
4.2.0
Insight Segmentation and Registration Toolkit
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#include <itkMRASlabIdentifier.h>
Inheritance diagram for itk::MRASlabIdentifier< TInputImage >: Collaboration diagram for itk::MRASlabIdentifier< TInputImage >:Public Types | |
| typedef SmartPointer< const Self > | ConstPointer |
| typedef TInputImage::ConstPointer | ImageConstPointer |
| typedef TInputImage::IndexType | ImageIndexType |
| typedef TInputImage::PixelType | ImagePixelType |
| typedef TInputImage::Pointer | ImagePointer |
| typedef TInputImage::RegionType | ImageRegionType |
| typedef TInputImage::SizeType | ImageSizeType |
| typedef TInputImage | ImageType |
| typedef SmartPointer< Self > | Pointer |
| typedef MRASlabIdentifier | Self |
| typedef std::vector < ImageRegionType > | SlabRegionVectorType |
| typedef Object | Superclass |
| Public Types inherited from itk::Object | |
| Public Types inherited from itk::LightObject | |
Public Member Functions | |
| virtual ::itk::LightObject::Pointer | CreateAnother (void) const |
| void | GenerateSlabRegions (void) |
| virtual const char * | GetNameOfClass () const |
| SlabRegionVectorType | GetSlabRegionVector (void) |
| virtual void | SetImage (const ImageType *_arg) |
| virtual const ImageType * | GetImage () |
| virtual void | SetNumberOfSamples (unsigned int _arg) |
| virtual const unsigned int & | GetNumberOfSamples () |
| virtual void | SetBackgroundMinimumThreshold (ImagePixelType _arg) |
| virtual const ImagePixelType & | GetBackgroundMinimumThreshold () |
| virtual void | SetTolerance (double _arg) |
| virtual const double & | GetTolerance () |
| virtual void | SetSlicingDirection (int _arg) |
| virtual const int & | GetSlicingDirection () |
| Public Member Functions inherited from itk::Object | |
| unsigned long | AddObserver (const EventObject &event, Command *) |
| unsigned long | AddObserver (const EventObject &event, Command *) const |
| virtual void | DebugOff () const |
| virtual void | DebugOn () const |
| Command * | GetCommand (unsigned long tag) |
| bool | GetDebug () const |
| MetaDataDictionary & | GetMetaDataDictionary (void) |
| const MetaDataDictionary & | GetMetaDataDictionary (void) const |
| virtual unsigned long | GetMTime () const |
| virtual const TimeStamp & | GetTimeStamp () const |
| bool | HasObserver (const EventObject &event) const |
| void | InvokeEvent (const EventObject &) |
| void | InvokeEvent (const EventObject &) const |
| virtual void | Modified () const |
| virtual void | Register () const |
| void | RemoveAllObservers () |
| void | RemoveObserver (unsigned long tag) |
| void | SetDebug (bool debugFlag) const |
| void | SetMetaDataDictionary (const MetaDataDictionary &rhs) |
| virtual void | SetReferenceCount (int) |
| virtual void | UnRegister () const |
| Public Member Functions inherited from itk::LightObject | |
| virtual void | Delete () |
| virtual int | GetReferenceCount () const |
| itkCloneMacro (Self) | |
| void | Print (std::ostream &os, Indent indent=0) const |
Static Public Member Functions | |
| static Pointer | New () |
| Static Public Member Functions inherited from itk::Object | |
| static bool | GetGlobalWarningDisplay () |
| static void | GlobalWarningDisplayOff () |
| static void | GlobalWarningDisplayOn () |
| static void | SetGlobalWarningDisplay (bool flag) |
| Static Public Member Functions inherited from itk::LightObject | |
| static void | BreakOnError () |
Protected Member Functions | |
| MRASlabIdentifier () | |
| void | PrintSelf (std::ostream &os, Indent indent) const |
| virtual | ~MRASlabIdentifier () |
| Protected Member Functions inherited from itk::Object | |
| Object () | |
| bool | PrintObservers (std::ostream &os, Indent indent) const |
| virtual void | SetTimeStamp (const TimeStamp &time) |
| virtual | ~Object () |
| Protected Member Functions inherited from itk::LightObject | |
| virtual LightObject::Pointer | InternalClone () const |
| LightObject () | |
| virtual void | PrintHeader (std::ostream &os, Indent indent) const |
| virtual void | PrintTrailer (std::ostream &os, Indent indent) const |
| virtual | ~LightObject () |
Private Member Functions | |
| MRASlabIdentifier (const Self &) | |
| void | operator= (const Self &) |
Private Attributes | |
| ImagePixelType | m_BackgroundMinimumThreshold |
| ImageConstPointer | m_Image |
| unsigned int | m_NumberOfSamples |
| SlabRegionVectorType | m_Slabs |
| int | m_SlicingDirection |
| double | m_Tolerance |
identifies slab in MR images comparing minimum intensity averages
This class is templated over the type of image. In many cases, a 3D MR image is constructed by merging smaller 3D blocks (slabs) which were acquired with different settings such as magnetic settings and patient positions. Therefore, stripe like patterns with slabs can be present in the resulting image. Such artifacts are called "slab boundary" artifacts or "venetian blind" artifacts.
With the slab boundary artifacts in an image, even a same tissue class's intensity values might vary significantly along the borders of slabs. Such rough value changes are not appropriate for some image processing methods. For example, MRIBiasFieldCorrectionFilter assumes a smooth bias field. However, with the slab boundary artifacts, the bias field estimation scheme that MRIBiasFieldCorrectionFilter uses might not adopt well. So, the MRIBiasFieldCorrectionFilter creates regions for slabs using the MRASlabIdentifier and then apply its bias correction scheme to each slab.
For this identifier, a slice means 2D image data which is extracted from the input image along one of three axes (x, y, z). Users can specify the slicing axis using the SetSlicingDirection(int dimension) member. (0 - x, 1 - y, 2 - z).
The identification scheme used here is very simple. 1) Users should specify how many pixels per slice the identifier will sample. 2) For each slice, the identifier searches the specified number of pixels of which intensity values are greater than 0 and less than those of the other pixels in the slice 3) The identifier calculates the average for each slice and the overall average using the search results. 4) For each slice, it subtracts the overall average from the slice average. If the sign of the subtraction result changes, then it assumes that a slab ends and another slab begins.
Definition at line 65 of file itkMRASlabIdentifier.h.
| typedef SmartPointer< const Self > itk::MRASlabIdentifier< TInputImage >::ConstPointer |
Reimplemented from itk::Object.
Definition at line 72 of file itkMRASlabIdentifier.h.
| typedef TInputImage::ConstPointer itk::MRASlabIdentifier< TInputImage >::ImageConstPointer |
Const Pointer type for the image.
Definition at line 87 of file itkMRASlabIdentifier.h.
| typedef TInputImage::IndexType itk::MRASlabIdentifier< TInputImage >::ImageIndexType |
Definition at line 91 of file itkMRASlabIdentifier.h.
| typedef TInputImage::PixelType itk::MRASlabIdentifier< TInputImage >::ImagePixelType |
Type definition for the input image pixel type.
Definition at line 90 of file itkMRASlabIdentifier.h.
| typedef TInputImage::Pointer itk::MRASlabIdentifier< TInputImage >::ImagePointer |
Pointer type for the image.
Definition at line 84 of file itkMRASlabIdentifier.h.
| typedef TInputImage::RegionType itk::MRASlabIdentifier< TInputImage >::ImageRegionType |
Definition at line 93 of file itkMRASlabIdentifier.h.
| typedef TInputImage::SizeType itk::MRASlabIdentifier< TInputImage >::ImageSizeType |
Definition at line 92 of file itkMRASlabIdentifier.h.
| typedef TInputImage itk::MRASlabIdentifier< TInputImage >::ImageType |
Type definition for the input image.
Definition at line 78 of file itkMRASlabIdentifier.h.
| typedef SmartPointer< Self > itk::MRASlabIdentifier< TInputImage >::Pointer |
Reimplemented from itk::Object.
Definition at line 71 of file itkMRASlabIdentifier.h.
| typedef MRASlabIdentifier itk::MRASlabIdentifier< TInputImage >::Self |
Standard class typedefs.
Reimplemented from itk::Object.
Definition at line 69 of file itkMRASlabIdentifier.h.
| typedef std::vector< ImageRegionType > itk::MRASlabIdentifier< TInputImage >::SlabRegionVectorType |
Definition at line 94 of file itkMRASlabIdentifier.h.
| typedef Object itk::MRASlabIdentifier< TInputImage >::Superclass |
Reimplemented from itk::Object.
Definition at line 70 of file itkMRASlabIdentifier.h.
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Definition at line 131 of file itkMRASlabIdentifier.h.
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Create an object from an instance, potentially deferring to a factory. This method allows you to create an instance of an object that is exactly the same type as the referring object. This is useful in cases where an object has been cast back to a base class.
Reimplemented from itk::Object.
| void itk::MRASlabIdentifier< TInputImage >::GenerateSlabRegions | ( | void | ) |
Compute the average values of miminum intensity pixels for each slice and compare the average values with overall averages.
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Set/Get the minimum threshold value for the background pixels
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Set/Get the input image.
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Run-time type information (and related methods).
Reimplemented from itk::Object.
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Set/Get the number of minimum intensity pixels per slice.
| SlabRegionVectorType itk::MRASlabIdentifier< TInputImage >::GetSlabRegionVector | ( | void | ) |
Get slab regions.
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Set/Get the direction of slicing/ 0 - x axis, 1 - y axis, 2 - z axis
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Set/Get the tolerance value.
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Method for creation through the object factory.
Reimplemented from itk::Object.
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Mutex lock to protect modification to the reference count
Reimplemented from itk::Object.
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Methods invoked by Print() to print information about the object including superclasses. Typically not called by the user (use Print() instead) but used in the hierarchical print process to combine the output of several classes.
Reimplemented from itk::Object.
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Set/Get the minimum threshold value for the background pixels
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Set/Get the input image.
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Set/Get the number of minimum intensity pixels per slice.
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Set/Get the direction of slicing/ 0 - x axis, 1 - y axis, 2 - z axis
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Set/Get the tolerance value.
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Definition at line 146 of file itkMRASlabIdentifier.h.
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Target image pointer that MRASlabIdentifier will use.
Definition at line 139 of file itkMRASlabIdentifier.h.
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The number of pixels per slice which will be included for average calculation. In a sense, it's sampling size per slice.
Definition at line 143 of file itkMRASlabIdentifier.h.
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Definition at line 148 of file itkMRASlabIdentifier.h.
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Definition at line 145 of file itkMRASlabIdentifier.h.
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Definition at line 147 of file itkMRASlabIdentifier.h.
1.8.1
