Medical Imaging Interaction Toolkit  2016.11.0
Medical Imaging Interaction Toolkit
Public Types | Public Member Functions | Static Public Member Functions | Protected Member Functions | Protected Attributes | List of all members
itk::ProjectionFilter Class Reference

Projection part of the TBSS pipeline. More...

#include <itkProjectionFilter.h>

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Public Types

typedef itk::Image< float, 3 > RealImageType
 
typedef itk::CovariantVector< int, 3 > VectorType
 
typedef itk::Image< VectorType, 3 > VectorImageType
 
typedef itk::Image< char, 3 > CharImageType
 
typedef itk::Image< float, 4 > Float4DImageType
 
typedef itk::Image< float, 3 > FloatImageType
 
typedef ProjectionFilter Self
 
typedef Object Superclass
 
typedef SmartPointer< Self > Pointer
 
typedef SmartPointer< const Self > ConstPointer
 

Public Member Functions

Pointer Clone () const
 
void Project ()
 Does the actual projection. More...
 
virtual void SetDistanceMap (RealImageType::Pointer _arg)
 Set the distance map. More...
 
virtual void SetDirections (VectorImageType::Pointer _arg)
 Set the directions. More...
 
virtual void SetSkeleton (CharImageType::Pointer _arg)
 Set the binary skeleton. More...
 
virtual void SetTube (CharImageType::Pointer _arg)
 Set the mask defining tubular structures on the skeleton. More...
 
virtual void SetAllFA (Float4DImageType::Pointer _arg)
 Set a 4D image containing the 3D registered FA maps of all study subjects. More...
 
virtual Float4DImageType::Pointer GetProjections ()
 Returns a 4D image containing the skeleton projections of all subjects. More...
 

Static Public Member Functions

static Pointer New ()
 

Protected Member Functions

 ProjectionFilter ()
 
virtual ~ProjectionFilter ()
 
int round (float x)
 

Protected Attributes

RealImageType::Pointer m_DistanceMap
 
VectorImageType::Pointer m_Directions
 
CharImageType::Pointer m_Skeleton
 
CharImageType::Pointer m_Tube
 
Float4DImageType::Pointer m_Projections
 
Float4DImageType::Pointer m_AllFA
 

Detailed Description

Projection part of the TBSS pipeline.

This class performs the projection step of the TBSS pipeline (see Smith et al., 2009. http://dx.doi.org/10.1016/j.neuroimage.2006.02.024 ) As input it takes a binary skeleton, a distance map, and a vector image containing the image gradients that are typically provided by the itkSkeletonizationFilter and the itkDistanceMapFilter. Furthermore it requires a 4d dataset with patient data registered to the same space as the mean FA image. This 4D dataset is typically created by the TBSS pipeline (see http://fsl.fmrib.ox.ac.uk/fsl/fsl4.0/tbss/index), in which case it is often named all_FA.nii.gz

Definition at line 42 of file itkProjectionFilter.h.

Member Typedef Documentation

typedef itk::Image<char,3> itk::ProjectionFilter::CharImageType

Definition at line 53 of file itkProjectionFilter.h.

typedef SmartPointer<const Self> itk::ProjectionFilter::ConstPointer

Smart Pointer

Definition at line 72 of file itkProjectionFilter.h.

typedef itk::Image<float, 4> itk::ProjectionFilter::Float4DImageType

Definition at line 55 of file itkProjectionFilter.h.

typedef itk::Image<float, 3> itk::ProjectionFilter::FloatImageType

Definition at line 56 of file itkProjectionFilter.h.

typedef SmartPointer<Self> itk::ProjectionFilter::Pointer

Smart Pointer

Definition at line 69 of file itkProjectionFilter.h.

typedef itk::Image<float, 3> itk::ProjectionFilter::RealImageType

Definition at line 47 of file itkProjectionFilter.h.

typedef ProjectionFilter itk::ProjectionFilter::Self

Definition at line 63 of file itkProjectionFilter.h.

typedef Object itk::ProjectionFilter::Superclass

Superclass

Definition at line 66 of file itkProjectionFilter.h.

typedef itk::Image<VectorType, 3> itk::ProjectionFilter::VectorImageType

Definition at line 51 of file itkProjectionFilter.h.

typedef itk::CovariantVector<int,3> itk::ProjectionFilter::VectorType

Definition at line 49 of file itkProjectionFilter.h.

Constructor & Destructor Documentation

itk::ProjectionFilter::ProjectionFilter ( )
protected

Constructor

virtual itk::ProjectionFilter::~ProjectionFilter ( )
protectedvirtual

Destructor

Member Function Documentation

Pointer itk::ProjectionFilter::Clone ( ) const
virtual Float4DImageType::Pointer itk::ProjectionFilter::GetProjections ( )
virtual

Returns a 4D image containing the skeleton projections of all subjects.

static Pointer itk::ProjectionFilter::New ( )
static
void itk::ProjectionFilter::Project ( )

Does the actual projection.

int itk::ProjectionFilter::round ( float  x)
inlineprotected

Definition at line 141 of file itkProjectionFilter.h.

virtual void itk::ProjectionFilter::SetAllFA ( Float4DImageType::Pointer  _arg)
virtual

Set a 4D image containing the 3D registered FA maps of all study subjects.

virtual void itk::ProjectionFilter::SetDirections ( VectorImageType::Pointer  _arg)
virtual

Set the directions.

Sets the direction calculated by the TBSS skeletonization algorithm in itkSkeletonizationFilter.

virtual void itk::ProjectionFilter::SetDistanceMap ( RealImageType::Pointer  _arg)
virtual

Set the distance map.

Sets the distance map that decodes for every voxel the distance to the nearest point on the skeleton.

virtual void itk::ProjectionFilter::SetSkeleton ( CharImageType::Pointer  _arg)
virtual

Set the binary skeleton.

Sets the binary skeleton that defines on which voxels must be projected.

virtual void itk::ProjectionFilter::SetTube ( CharImageType::Pointer  _arg)
virtual

Set the mask defining tubular structures on the skeleton.

Sets a binary mask that defines wich part of the white matter skeleton are tubular instead of sheet like. This is important because the a different projection method is used for sheet like structues and tubular structures.

Member Data Documentation

Float4DImageType::Pointer itk::ProjectionFilter::m_AllFA
protected

Definition at line 139 of file itkProjectionFilter.h.

VectorImageType::Pointer itk::ProjectionFilter::m_Directions
protected

Definition at line 131 of file itkProjectionFilter.h.

RealImageType::Pointer itk::ProjectionFilter::m_DistanceMap
protected

Definition at line 129 of file itkProjectionFilter.h.

Float4DImageType::Pointer itk::ProjectionFilter::m_Projections
protected

Definition at line 137 of file itkProjectionFilter.h.

CharImageType::Pointer itk::ProjectionFilter::m_Skeleton
protected

Definition at line 133 of file itkProjectionFilter.h.

CharImageType::Pointer itk::ProjectionFilter::m_Tube
protected

Definition at line 135 of file itkProjectionFilter.h.

The documentation for this class was generated from the following file: