niftkBreastDensityFromMRIs.cxx File Reference

Classes
class	InputParameters

Macros
#define	SegPrecisionTYPE   float

Typedefs
typedef itk::MetaDataDictionary	DictionaryType
typedef itk::MetaDataObject < std::string >	MetaDataStringType
typedef float	PixelType
typedef itk::Image< PixelType, Dimension >	ImageType
typedef itk::Image< unsigned char, Dimension >	MaskImageType

Functions
std::string	GetTag (const DictionaryType &dictionary, std::string entryId, std::string *idTag=0)
std::string	CreateRegisteredFilename (std::string fileTarget, std::string fileSource, std::string description)
std::string	GetOrientationInfo (ImageType::Pointer image)
void	PrintOrientationInfo (ImageType::Pointer image)
ImageType::Pointer	ReorientateImage (ImageType::Pointer inImage, std::string desiredOrientation)
bool	AffineRegisterImages (std::string fileTarget, std::string fileSource, std::string fileRegistered, std::string &fileAffineTransform, InputParameters &args)
bool	NonRigidRegisterImages (std::string fileTarget, std::string fileSource, std::string fileRegistered, std::string fileAffineTransform, std::string &fileNonRigidTransform, InputParameters &args)
bool	RegisterImages (std::string fileTarget, std::string fileSource, std::string fileRegistered, InputParameters &args)
bool	ResampleImages (std::string fileTarget, std::string fileResampleInput, std::string fileResampleOutput, std::string fileNonRigidTransform, std::string resamplingInterpolation, InputParameters &args)
bool	RegisterAndResample (std::string fileTarget, std::string fileSource, std::string fileResampleInput, std::string fileResampleOutput, std::string resamplingInterpolation, InputParameters &args)
std::string	SplitStringIntoCommandAndArguments (std::string inString, QStringList &arguments)
void	NaiveParenchymaSegmentation (std::string label, InputParameters &args, ImageType::Pointer &imSegmentedBreastMask, ImageType::Pointer &image, bool flgFatIsBright, float &nLeftVoxels, float &nRightVoxels, float &totalDensity, float &leftDensity, float &rightDensity, std::string fileOutputParenchyma)
bool	SegmentParenchyma (std::string label, InputParameters &args, std::ofstream *foutOutputCSV, std::string fileOutputCSV, bool &flgVeryFirstRow, bool flgFatIsBright, std::string dirBaseName, std::string fileInputImage, std::string fileOutputBreastMask, std::string fileOutputParenchyma, std::string fileDensityMeasurements, ImageType::Pointer &imSegmentedBreastMask, ImageType::Pointer &image)
bool	ReadFileCSV (InputParameters &args, std::string fileDensityMeasurements, std::ofstream *foutOutputCSV, bool &flgVeryFirstRow)
int	main (int argc, char *argv[])

Variables
const unsigned int	Dimension = 3

Macro Definition Documentation

#define SegPrecisionTYPE   float

Typedef Documentation

typedef itk::MetaDataDictionary DictionaryType

typedef itk::Image< PixelType, Dimension > ImageType

typedef itk::Image< unsigned char, Dimension > MaskImageType

typedef itk::MetaDataObject< std::string > MetaDataStringType

typedef float PixelType

Function Documentation

bool AffineRegisterImages	(	std::string	fileTarget,
		std::string	fileSource,
		std::string	fileRegistered,
		std::string &	fileAffineTransform,
		InputParameters &	args
	)

std::string CreateRegisteredFilename	(	std::string	fileTarget,
		std::string	fileSource,
		std::string	description
	)

std::string GetOrientationInfo

(

ImageType::Pointer

image

)

std::string GetTag	(	const DictionaryType &	dictionary,
		std::string	entryId,
		std::string *	idTag = 0
	)

int main	(	int	argc,
		char *	argv[]
	)

void NaiveParenchymaSegmentation	(	std::string	label,
		InputParameters &	args,
		ImageType::Pointer &	imSegmentedBreastMask,
		ImageType::Pointer &	image,
		bool	flgFatIsBright,
		float &	nLeftVoxels,
		float &	nRightVoxels,
		float &	totalDensity,
		float &	leftDensity,
		float &	rightDensity,
		std::string	fileOutputParenchyma
	)

bool NonRigidRegisterImages	(	std::string	fileTarget,
		std::string	fileSource,
		std::string	fileRegistered,
		std::string	fileAffineTransform,
		std::string &	fileNonRigidTransform,
		InputParameters &	args
	)

void PrintOrientationInfo

(

ImageType::Pointer

image

)

bool ReadFileCSV	(	InputParameters &	args,
		std::string	fileDensityMeasurements,
		std::ofstream *	foutOutputCSV,
		bool &	flgVeryFirstRow
	)

bool RegisterAndResample	(	std::string	fileTarget,
		std::string	fileSource,
		std::string	fileResampleInput,
		std::string	fileResampleOutput,
		std::string	resamplingInterpolation,
		InputParameters &	args
	)

bool RegisterImages	(	std::string	fileTarget,
		std::string	fileSource,
		std::string	fileRegistered,
		InputParameters &	args
	)

ImageType::Pointer ReorientateImage	(	ImageType::Pointer	inImage,
		std::string	desiredOrientation
	)

bool ResampleImages	(	std::string	fileTarget,
		std::string	fileResampleInput,
		std::string	fileResampleOutput,
		std::string	fileNonRigidTransform,
		std::string	resamplingInterpolation,
		InputParameters &	args
	)

bool SegmentParenchyma	(	std::string	label,
		InputParameters &	args,
		std::ofstream *	foutOutputCSV,
		std::string	fileOutputCSV,
		bool &	flgVeryFirstRow,
		bool	flgFatIsBright,
		std::string	dirBaseName,
		std::string	fileInputImage,
		std::string	fileOutputBreastMask,
		std::string	fileOutputParenchyma,
		std::string	fileDensityMeasurements,
		ImageType::Pointer &	imSegmentedBreastMask,
		ImageType::Pointer &	image
	)

std::string SplitStringIntoCommandAndArguments	(	std::string	inString,
		QStringList &	arguments
	)

Variable Documentation

const unsigned int Dimension = 3