ITK
6.0.0
Insight Toolkit
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#include <itkMRASlabIdentifier.h>
Identifies slabs 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.
Due to the slab boundary artifacts in an image, even same tissue class' 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 adapt well. The MRIBiasFieldCorrectionFilter creates regions for slabs using the MRASlabIdentifier and then applies 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, where the dimension
variable follows the convention \({X, Y, Z} : {0, 1, 2}\).
The identification scheme used works according to the following steps:
Definition at line 67 of file itkMRASlabIdentifier.h.
Public Types | |
using | ConstPointer = SmartPointer< const Self > |
using | ImageConstPointer = typename TInputImage::ConstPointer |
using | ImageIndexType = typename TInputImage::IndexType |
using | ImagePixelType = typename TInputImage::PixelType |
using | ImagePointer = typename TInputImage::Pointer |
using | ImageRegionType = typename TInputImage::RegionType |
using | ImageSizeType = typename TInputImage::SizeType |
using | ImageType = TInputImage |
using | Pointer = SmartPointer< Self > |
using | Self = MRASlabIdentifier |
using | SlabRegionVectorType = std::vector< ImageRegionType > |
using | Superclass = Object |
Public Types inherited from itk::Object | |
using | ConstPointer = SmartPointer< const Self > |
using | Pointer = SmartPointer< Self > |
using | Self = Object |
using | Superclass = LightObject |
Public Types inherited from itk::LightObject | |
using | ConstPointer = SmartPointer< const Self > |
using | Pointer = SmartPointer< Self > |
using | Self = LightObject |
Public Member Functions | |
void | GenerateSlabRegions () |
const char * | GetNameOfClass () const override |
SlabRegionVectorType | GetSlabRegionVector () |
virtual void | SetImage (const ImageType *_arg) |
virtual const ImageType * | GetImage () const |
virtual void | SetNumberOfSamples (unsigned int _arg) |
virtual const unsigned int & | GetNumberOfSamples () const |
virtual void | SetBackgroundMinimumThreshold (ImagePixelType _arg) |
virtual const ImagePixelType & | GetBackgroundMinimumThreshold () const |
virtual void | SetTolerance (double _arg) |
virtual const double & | GetTolerance () const |
virtual void | SetSlicingDirection (int _arg) |
virtual const int & | GetSlicingDirection () const |
Public Member Functions inherited from itk::Object | |
unsigned long | AddObserver (const EventObject &event, Command *cmd) const |
unsigned long | AddObserver (const EventObject &event, std::function< void(const EventObject &)> function) const |
LightObject::Pointer | CreateAnother () const override |
virtual void | DebugOff () const |
virtual void | DebugOn () const |
Command * | GetCommand (unsigned long tag) |
bool | GetDebug () const |
MetaDataDictionary & | GetMetaDataDictionary () |
const MetaDataDictionary & | GetMetaDataDictionary () const |
virtual ModifiedTimeType | GetMTime () const |
const char * | GetNameOfClass () const override |
virtual const TimeStamp & | GetTimeStamp () const |
bool | HasObserver (const EventObject &event) const |
void | InvokeEvent (const EventObject &) |
void | InvokeEvent (const EventObject &) const |
virtual void | Modified () const |
void | Register () const override |
void | RemoveAllObservers () |
void | RemoveObserver (unsigned long tag) const |
void | SetDebug (bool debugFlag) const |
void | SetReferenceCount (int) override |
void | UnRegister () const noexcept override |
void | SetMetaDataDictionary (const MetaDataDictionary &rhs) |
void | SetMetaDataDictionary (MetaDataDictionary &&rrhs) |
virtual void | SetObjectName (std::string _arg) |
virtual const std::string & | GetObjectName () const |
Public Member Functions inherited from itk::LightObject | |
Pointer | Clone () const |
virtual Pointer | CreateAnother () const |
virtual void | Delete () |
virtual const char * | GetNameOfClass () const |
virtual int | GetReferenceCount () const |
void | Print (std::ostream &os, Indent indent=0) const |
virtual void | Register () const |
virtual void | SetReferenceCount (int) |
virtual void | UnRegister () const noexcept |
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 Pointer | New () |
static void | SetGlobalWarningDisplay (bool val) |
Static Public Member Functions inherited from itk::LightObject | |
static void | BreakOnError () |
static Pointer | New () |
Protected Member Functions | |
MRASlabIdentifier () | |
void | PrintSelf (std::ostream &os, Indent indent) const override |
~MRASlabIdentifier () override=default | |
Protected Member Functions inherited from itk::Object | |
Object () | |
bool | PrintObservers (std::ostream &os, Indent indent) const |
void | PrintSelf (std::ostream &os, Indent indent) const override |
virtual void | SetTimeStamp (const TimeStamp &timeStamp) |
~Object () override | |
Protected Member Functions inherited from itk::LightObject | |
virtual LightObject::Pointer | InternalClone () const |
LightObject () | |
virtual void | PrintHeader (std::ostream &os, Indent indent) const |
virtual void | PrintSelf (std::ostream &os, Indent indent) const |
virtual void | PrintTrailer (std::ostream &os, Indent indent) const |
virtual | ~LightObject () |
Private Attributes | |
ImagePixelType | m_BackgroundMinimumThreshold {} |
ImageConstPointer | m_Image {} |
unsigned int | m_NumberOfSamples {} |
SlabRegionVectorType | m_Slabs {} |
int | m_SlicingDirection {} |
double | m_Tolerance {} |
Additional Inherited Members | |
Protected Attributes inherited from itk::LightObject | |
std::atomic< int > | m_ReferenceCount {} |
using itk::MRASlabIdentifier< TInputImage >::ConstPointer = SmartPointer<const Self> |
Definition at line 76 of file itkMRASlabIdentifier.h.
using itk::MRASlabIdentifier< TInputImage >::ImageConstPointer = typename TInputImage::ConstPointer |
Const Pointer type for the image.
Definition at line 91 of file itkMRASlabIdentifier.h.
using itk::MRASlabIdentifier< TInputImage >::ImageIndexType = typename TInputImage::IndexType |
Definition at line 95 of file itkMRASlabIdentifier.h.
using itk::MRASlabIdentifier< TInputImage >::ImagePixelType = typename TInputImage::PixelType |
Type definition for the input image pixel type.
Definition at line 94 of file itkMRASlabIdentifier.h.
using itk::MRASlabIdentifier< TInputImage >::ImagePointer = typename TInputImage::Pointer |
Pointer type for the image.
Definition at line 88 of file itkMRASlabIdentifier.h.
using itk::MRASlabIdentifier< TInputImage >::ImageRegionType = typename TInputImage::RegionType |
Definition at line 97 of file itkMRASlabIdentifier.h.
using itk::MRASlabIdentifier< TInputImage >::ImageSizeType = typename TInputImage::SizeType |
Definition at line 96 of file itkMRASlabIdentifier.h.
using itk::MRASlabIdentifier< TInputImage >::ImageType = TInputImage |
Type definition for the input image.
Definition at line 85 of file itkMRASlabIdentifier.h.
using itk::MRASlabIdentifier< TInputImage >::Pointer = SmartPointer<Self> |
Definition at line 75 of file itkMRASlabIdentifier.h.
using itk::MRASlabIdentifier< TInputImage >::Self = MRASlabIdentifier |
Standard class type aliases.
Definition at line 73 of file itkMRASlabIdentifier.h.
using itk::MRASlabIdentifier< TInputImage >::SlabRegionVectorType = std::vector<ImageRegionType> |
Definition at line 98 of file itkMRASlabIdentifier.h.
using itk::MRASlabIdentifier< TInputImage >::Superclass = Object |
Definition at line 74 of file itkMRASlabIdentifier.h.
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protected |
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overrideprotecteddefault |
void itk::MRASlabIdentifier< TInputImage >::GenerateSlabRegions | ( | ) |
Compute the average values of minimum 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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overridevirtual |
Reimplemented from itk::Object.
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Set/Get the number of minimum intensity pixels per slice.
SlabRegionVectorType itk::MRASlabIdentifier< TInputImage >::GetSlabRegionVector | ( | ) |
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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static |
Method for creation through the object factory.
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overrideprotectedvirtual |
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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private |
Definition at line 150 of file itkMRASlabIdentifier.h.
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Target image pointer that MRASlabIdentifier will use.
Definition at line 143 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 147 of file itkMRASlabIdentifier.h.
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Definition at line 152 of file itkMRASlabIdentifier.h.
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Definition at line 149 of file itkMRASlabIdentifier.h.
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Definition at line 151 of file itkMRASlabIdentifier.h.