Plot widget for TBSS Data This widget can plot regions of interest on TBSS projection data. The projection data is created by importing FSL TBSS subject data and completing it with patient data using the QmitkTractbasedSpatialStatisticsView. The region of interest is a vector of indices from which data for plotting should be obtained. More...

#include <QmitkTbssRoiAnalysisWidget.h>

Inheritance diagram for QmitkTbssRoiAnalysisWidget:

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Collaboration diagram for QmitkTbssRoiAnalysisWidget:

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Public Member Functions
	QmitkTbssRoiAnalysisWidget (QWidget *parent)

virtual	~QmitkTbssRoiAnalysisWidget ()

void	SetGroups (std::vector< std::pair< std::string, int > > groups)

void	DrawProfiles ()

void	PlotFiber4D (mitk::TbssImage::Pointer tbssImage, mitk::FiberBundle fib, mitk::DataNode startRoi, mitk::DataNode *endRoi, int number)

template<typename T >
void	PlotFiberBundles (const mitk::PixelType, TractContainerType tracts, mitk::Image *img, bool avg=false)

void	SetProjections (VectorImageType::Pointer projections)

void	SetRoi (RoiType roi)

void	SetStructure (std::string structure)

void	SetMeasure (std::string measure)

void	drawBar (int x)

std::vector< std::vector< double > >	GetVals ()

std::vector< std::vector< double > >	GetIndividualProfiles ()

std::vector< double >	GetAverageProfile ()

void	SetPlottingFiber (bool b)

bool	IsPlottingFiber ()

void	PlotFiberBetweenRois (mitk::FiberBundle fib, mitk::Image img, mitk::DataNode startRoi, mitk::DataNode endRoi, bool avg=-1, int number=25)

mitk::Point3D	GetPositionInWorld (int index)

void	ModifyPlot (int number, bool avg)

Public Member Functions inherited from QmitkPlotWidget
	QmitkPlotWidget (QWidget parent=nullptr, const char title=nullptr, const char *name=nullptr, Qt::WindowFlags f=nullptr)

virtual	~QmitkPlotWidget ()

QwtPlot *	GetPlot ()

void	SetPlotTitle (const QwtText &qwt_title)

void	SetPlotTitle (const char *title)

unsigned int	InsertCurve (const char *title, QColor color=QColor(Qt::black))

void	SetAxisTitle (int axis, const char *title)

bool	SetCurveData (unsigned int curveId, const DataVector &xValues, const DataVector &yValues)

bool	SetCurveData (unsigned int curveId, const DataVector &xValues, const DataVector &yValues, const DataVector &yLowerError, const DataVector &yUpperError)
	Sets the data with errors for a previously added curve. More...

bool	SetCurveData (unsigned int curveId, const DataVector &xValues, const DataVector &yValues, const DataVector &xLowerError, const DataVector &xUpperError, const DataVector &yLowerError, const DataVector &yUpperError)
	Sets the data with errors for a previously added curve. More...

bool	SetCurveData (unsigned int curveId, const XYDataVector &data)

void	SetCurvePen (unsigned int curveId, const QPen &pen)

void	SetCurveBrush (unsigned int curveId, const QBrush &brush)

void	SetCurveStyle (unsigned int curveId, const QwtPlotCurve::CurveStyle style)

void	SetCurveSymbol (unsigned int curveId, QwtSymbol *symbol)

void	SetCurveAntialiasingOn (unsigned int curveId)

void	SetCurveAntialiasingOff (unsigned int curveId)

void	SetCurveTitle (unsigned int curveId, const char *title)

void	SetErrorPen (unsigned int curveId, const QPen &pen)

void	SetErrorStyleSymbols (unsigned int curveId, bool drawSmybols)

void	SetLegend (QwtLegend *legend, QwtPlot::LegendPosition pos=QwtPlot::RightLegend, double ratio=-1)

void	SetLegendAttribute (unsigned int curveId, const QwtPlotCurve::LegendAttribute &attribute)

void	Replot ()

void	Clear ()

Public Attributes
QwtPlotPicker *	m_PlotPicker

Protected Member Functions
std::vector< std::vector< double > >	CalculateGroupProfiles ()

std::vector< std::vector< double > >	CalculateGroupProfilesFibers (mitk::TbssImage::Pointer tbssImage, mitk::FiberBundle fib, mitk::DataNode startRoi, mitk::DataNode *endRoi, int number)

void	Plot (std::vector< std::vector< double > > groupProfiles)

void	Tokenize (const std::string &str, std::vector< std::string > &tokens, const std::string &delimiters=" ")

TractContainerType	ParameterizeTracts (TractContainerType tracts, int number)

void	DoPlotFiberBundles (mitk::FiberBundle fib, mitk::Image img, mitk::DataNode startRoi, mitk::DataNode endRoi, bool avg=false, int number=25)

TractContainerType	CreateTracts (mitk::FiberBundle fib, mitk::DataNode startRoi, mitk::DataNode *endRoi)

Protected Member Functions inherited from QmitkPlotWidget
double *	ConvertToRawArray (const DataVector &values)

double *	ConvertToRawArray (const XYDataVector &values, unsigned int component)

bool	AddErrorIntervalCurve (unsigned int curveId, const DataVector &lessError, const DataVector &moreError, bool isXError)

Protected Attributes
mitk::FiberBundle *	m_Fib

std::vector< std::vector< double > >	m_Vals

std::vector< std::vector< double > >	m_IndividualProfiles

std::vector< double >	m_Average

std::vector< std::pair< std::string, int > >	m_Groups

VectorImageType::Pointer	m_Projections

RoiType	m_Roi

std::string	m_Structure

std::string	m_Measure

bool	m_PlottingFiberBundle

TractContainerType	m_CurrentTracts

mitk::Image *	m_CurrentImage

mitk::TbssImage *	m_CurrentTbssImage

mitk::DataNode *	m_CurrentStartRoi

mitk::DataNode *	m_CurrentEndRoi

Protected Attributes inherited from QmitkPlotWidget
QwtPlot *	m_Plot

std::vector< std::tuple< QwtPlotCurve , QwtPlotIntervalCurve , QwtPlotIntervalCurve * > >	m_PlotCurveVector

Additional Inherited Members
Public Types inherited from QmitkPlotWidget
typedef double	ScalarType

typedef std::vector< ScalarType >	DataVector

typedef std::vector< std::pair< double, double > >	XYDataVector

Detailed Description

Plot widget for TBSS Data This widget can plot regions of interest on TBSS projection data. The projection data is created by importing FSL TBSS subject data and completing it with patient data using the QmitkTractbasedSpatialStatisticsView. The region of interest is a vector of indices from which data for plotting should be obtained.

Definition at line 45 of file QmitkTbssRoiAnalysisWidget.h.

Constructor & Destructor Documentation

QmitkTbssRoiAnalysisWidget::QmitkTbssRoiAnalysisWidget ( QWidget * parent )

Definition at line 27 of file QmitkTbssRoiAnalysisWidget.cpp.

References QmitkPlotWidget::m_Plot, m_PlotPicker, and m_PlottingFiberBundle.

QmitkTbssRoiAnalysisWidget::~QmitkTbssRoiAnalysisWidget ( )

virtual

Definition at line 959 of file QmitkTbssRoiAnalysisWidget.cpp.

References m_PlotPicker.

Member Function Documentation

std::vector< std::vector< mitk::ScalarType > > QmitkTbssRoiAnalysisWidget::CalculateGroupProfiles ( )

protected

Definition at line 536 of file QmitkTbssRoiAnalysisWidget.cpp.

References m_Groups, m_IndividualProfiles, m_Projections, m_Roi, and MITK_INFO.

Referenced by DrawProfiles().

std::vector< std::vector< mitk::ScalarType > > QmitkTbssRoiAnalysisWidget::CalculateGroupProfilesFibers	(	mitk::TbssImage::Pointer	tbssImage,
		mitk::FiberBundle *	fib,
		mitk::DataNode *	startRoi,
		mitk::DataNode *	endRoi,
		int	number
	)

protected

Definition at line 694 of file QmitkTbssRoiAnalysisWidget.cpp.

References QmitkPlotWidget::Clear(), CreateTracts(), m_Groups, m_IndividualProfiles, m_Projections, and ParameterizeTracts().

Referenced by PlotFiber4D().

TractContainerType QmitkTbssRoiAnalysisWidget::CreateTracts	(	mitk::FiberBundle *	fib,
		mitk::DataNode *	startRoi,
		mitk::DataNode *	endRoi
	)

protected

Definition at line 56 of file QmitkTbssRoiAnalysisWidget.cpp.

References mitk::FiberBundle::ExtractFiberSubset(), mitk::DataNode::GetData(), mitk::PlaneGeometry::GetNormal(), mitk::PlaneGeometry::IsAbove(), and max().

Referenced by CalculateGroupProfilesFibers(), and DoPlotFiberBundles().

void QmitkTbssRoiAnalysisWidget::DoPlotFiberBundles	(	mitk::FiberBundle *	fib,
		mitk::Image *	img,
		mitk::DataNode *	startRoi,
		mitk::DataNode *	endRoi,
		bool	avg = `false`,
		int	number = `25`
	)

protected

Definition at line 39 of file QmitkTbssRoiAnalysisWidget.cpp.

References CreateTracts(), mitk::Image::GetImageDescriptor(), m_CurrentTracts, mitkPixelTypeMultiplex3, ParameterizeTracts(), and PlotFiberBundles().

Referenced by ModifyPlot(), and PlotFiberBetweenRois().

void QmitkTbssRoiAnalysisWidget::drawBar ( int x )

Definition at line 939 of file QmitkTbssRoiAnalysisWidget.cpp.

References QmitkPlotWidget::m_Plot, and QmitkPlotWidget::Replot().

void QmitkTbssRoiAnalysisWidget::DrawProfiles ( )

Definition at line 613 of file QmitkTbssRoiAnalysisWidget.cpp.

References CalculateGroupProfiles(), and Plot().

std::vector<double> QmitkTbssRoiAnalysisWidget::GetAverageProfile ( )

inline

Definition at line 121 of file QmitkTbssRoiAnalysisWidget.h.

std::vector<std::vector<double> > QmitkTbssRoiAnalysisWidget::GetIndividualProfiles ( )

inline

Definition at line 115 of file QmitkTbssRoiAnalysisWidget.h.

mitk::Point3D QmitkTbssRoiAnalysisWidget::GetPositionInWorld ( int index )

Definition at line 503 of file QmitkTbssRoiAnalysisWidget.cpp.

References m_CurrentTracts.

std::vector<std::vector<double> > QmitkTbssRoiAnalysisWidget::GetVals ( )

inline

Definition at line 108 of file QmitkTbssRoiAnalysisWidget.h.

bool QmitkTbssRoiAnalysisWidget::IsPlottingFiber ( )

inline

Definition at line 132 of file QmitkTbssRoiAnalysisWidget.h.

void QmitkTbssRoiAnalysisWidget::ModifyPlot	(	int	number,
		bool	avg
	)

Definition at line 406 of file QmitkTbssRoiAnalysisWidget.cpp.

References DoPlotFiberBundles(), m_CurrentEndRoi, m_CurrentImage, m_CurrentStartRoi, m_CurrentTbssImage, m_Fib, m_PlottingFiberBundle, and PlotFiber4D().

TractContainerType QmitkTbssRoiAnalysisWidget::ParameterizeTracts	(	TractContainerType	tracts,
		int	number
	)

protected

Definition at line 423 of file QmitkTbssRoiAnalysisWidget.cpp.

Referenced by CalculateGroupProfilesFibers(), and DoPlotFiberBundles().

void QmitkTbssRoiAnalysisWidget::Plot ( std::vector< std::vector< double > > groupProfiles )

protected

Definition at line 619 of file QmitkTbssRoiAnalysisWidget.cpp.

References QmitkPlotWidget::Clear(), QmitkPlotWidget::InsertCurve(), m_Groups, m_Measure, QmitkPlotWidget::m_Plot, m_Structure, m_Vals, QmitkPlotWidget::Replot(), QmitkPlotWidget::SetCurveData(), QmitkPlotWidget::SetCurvePen(), QmitkPlotWidget::SetLegend(), and QmitkPlotWidget::SetPlotTitle().

Referenced by DrawProfiles(), and PlotFiber4D().

void QmitkTbssRoiAnalysisWidget::PlotFiber4D	(	mitk::TbssImage::Pointer	tbssImage,
		mitk::FiberBundle *	fib,
		mitk::DataNode *	startRoi,
		mitk::DataNode *	endRoi,
		int	number
	)

Definition at line 796 of file QmitkTbssRoiAnalysisWidget.cpp.

References CalculateGroupProfilesFibers(), m_CurrentEndRoi, m_CurrentStartRoi, m_CurrentTbssImage, m_Fib, m_PlottingFiberBundle, and Plot().

Referenced by ModifyPlot().

void QmitkTbssRoiAnalysisWidget::PlotFiberBetweenRois	(	mitk::FiberBundle *	fib,
		mitk::Image *	img,
		mitk::DataNode *	startRoi,
		mitk::DataNode *	endRoi,
		bool	avg = `-1`,
		int	number = `25`
	)