shapeworks::ReconstructSurface

Public Types

	Name
using typename TransformType::Pointer	TransformTypePtr
using typename TransformType::PointSetType	PointSetType
using typename PointSetType::PointIdentifier	PointIdType

Public Functions

	Name
	ReconstructSurface() =default
	ReconstructSurface(const std::string & denseFile, const std::string & sparseFile, const std::string & goodPointsFile)
double	computeAverageDistanceToNeighbors(vtkSmartPointer< vtkPoints > points, std::vector< int > particlesIndices)
void	checkMapping(TransformTypePtr transform, vtkSmartPointer< vtkPoints > sourcePoints, vtkSmartPointer< vtkPoints > targetPoints)
void	generateWarpedMeshes(TransformTypePtr transform, vtkSmartPointer< vtkPolyData > & outputMesh)
Mesh	getMesh(PointArray localPoints)
vtkSmartPointer< vtkPoints >	convertToImageCoordinates(vtkSmartPointer< vtkPoints > particles, const Vector & spacing, const Point3 & origin)
int	computeMedianShape(std::vector< Eigen::MatrixXd > & shapeList)
void	performKMeansClustering(std::vector< PointArray > worldPoints, int numberOfParticles, std::vector< int > & centroidIndices)
Eigen::MatrixXd	computeParticlesNormals(vtkSmartPointer< vtkPoints > particles, Image dt)
vtkSmartPointer< vtkPolyData >	getDenseMean(std::vector< PointArray > localPoints, std::vector< PointArray > worldPoints, std::vector< std::string > distance_transform)
void	computeDenseMean(std::vector< PointArray > localPoints, std::vector< PointArray > worldPoints, std::vector< std::string > distanceTransform)
std::vector< PointArray >	computeSparseMean(std::vector< PointArray > localPoints, Point3 commonCenter)
void	writeMeanInfo()
void	surface(const std::vector< std::string > localPointsFiles)
void	samplesAlongPCAModes(const std::vector< std::string > worldPointsFiles)
void	meanSurface(const std::vector< std::string > distanceTransformFiles, const std::vector< std::string > localPointsFiles, const std::vector< std::string > worldPointsFiles)
void	setOutPrefix(std::string prefix)
void	setOutPath(std::string path)
void	setDoProcrustes(bool doProcrusts)
void	setDoProcrustesScaling(bool doProcrustsScaling)
void	setPairwiseNormalsDiffForGoodBad(bool pairwiseNormalsDiffForGoodBad)
void	setMeanBeforeWarp(bool meanBeforeWarp)
void	setEnableOutput(bool enableOutput)
void	setModeIndex(int modeIndex)
void	setNumOfModes(int numOfModes)
void	setNumOfSamplesPerMode(int numOfSamplesPerMode)
void	setNumOfParticles(int numOfParticles)
void	setNumOfClusters(int numOfClusters)
void	setMaxStdDev(float maxStdDev)
void	setMaxVarianceCaptured(float maxVarianceCaptured)
void	setMaxAngleDegrees(float maxAngleDegrees)

Detailed Description

template <class TransformType >
class shapeworks::ReconstructSurface;

Public Types Documentation

using TransformTypePtr

using shapeworks::ReconstructSurface< TransformType >::TransformTypePtr =  typename TransformType::Pointer;

using PointSetType

using shapeworks::ReconstructSurface< TransformType >::PointSetType =  typename TransformType::PointSetType;

using PointIdType

using shapeworks::ReconstructSurface< TransformType >::PointIdType =  typename PointSetType::PointIdentifier;

Public Functions Documentation

function ReconstructSurface

ReconstructSurface() =default

function ReconstructSurface

ReconstructSurface(
    const std::string & denseFile,
    const std::string & sparseFile,
    const std::string & goodPointsFile
)

function computeAverageDistanceToNeighbors

double computeAverageDistanceToNeighbors(
    vtkSmartPointer< vtkPoints > points,
    std::vector< int > particlesIndices
)

function checkMapping

void checkMapping(
    TransformTypePtr transform,
    vtkSmartPointer< vtkPoints > sourcePoints,
    vtkSmartPointer< vtkPoints > targetPoints
)

function generateWarpedMeshes

void generateWarpedMeshes(
    TransformTypePtr transform,
    vtkSmartPointer< vtkPolyData > & outputMesh
)

function getMesh

Mesh getMesh(
    PointArray localPoints
)

function convertToImageCoordinates

vtkSmartPointer< vtkPoints > convertToImageCoordinates(
    vtkSmartPointer< vtkPoints > particles,
    const Vector & spacing,
    const Point3 & origin
)

function computeMedianShape

int computeMedianShape(
    std::vector< Eigen::MatrixXd > & shapeList
)

function performKMeansClustering

void performKMeansClustering(
    std::vector< PointArray > worldPoints,
    int numberOfParticles,
    std::vector< int > & centroidIndices
)

function computeParticlesNormals

Eigen::MatrixXd computeParticlesNormals(
    vtkSmartPointer< vtkPoints > particles,
    Image dt
)

function getDenseMean

vtkSmartPointer< vtkPolyData > getDenseMean(
    std::vector< PointArray > localPoints,
    std::vector< PointArray > worldPoints,
    std::vector< std::string > distance_transform
)

function computeDenseMean

void computeDenseMean(
    std::vector< PointArray > localPoints,
    std::vector< PointArray > worldPoints,
    std::vector< std::string > distanceTransform
)

function computeSparseMean

std::vector< PointArray > computeSparseMean(
    std::vector< PointArray > localPoints,
    Point3 commonCenter
)

function writeMeanInfo

void writeMeanInfo()

function surface

void surface(
    const std::vector< std::string > localPointsFiles
)

function samplesAlongPCAModes

void samplesAlongPCAModes(
    const std::vector< std::string > worldPointsFiles
)

function meanSurface

void meanSurface(
    const std::vector< std::string > distanceTransformFiles,
    const std::vector< std::string > localPointsFiles,
    const std::vector< std::string > worldPointsFiles
)

function setOutPrefix

inline void setOutPrefix(
    std::string prefix
)

function setOutPath

inline void setOutPath(
    std::string path
)

function setDoProcrustes

inline void setDoProcrustes(
    bool doProcrusts
)

function setDoProcrustesScaling

inline void setDoProcrustesScaling(
    bool doProcrustsScaling
)

function setPairwiseNormalsDiffForGoodBad

inline void setPairwiseNormalsDiffForGoodBad(
    bool pairwiseNormalsDiffForGoodBad
)

function setMeanBeforeWarp

inline void setMeanBeforeWarp(
    bool meanBeforeWarp
)

function setEnableOutput

inline void setEnableOutput(
    bool enableOutput
)

function setModeIndex

inline void setModeIndex(
    int modeIndex
)

function setNumOfModes

inline void setNumOfModes(
    int numOfModes
)

function setNumOfSamplesPerMode

inline void setNumOfSamplesPerMode(
    int numOfSamplesPerMode
)

function setNumOfParticles

inline void setNumOfParticles(
    int numOfParticles
)

function setNumOfClusters

inline void setNumOfClusters(
    int numOfClusters
)

function setMaxStdDev

inline void setMaxStdDev(
    float maxStdDev
)

function setMaxVarianceCaptured

inline void setMaxVarianceCaptured(
    float maxVarianceCaptured
)

function setMaxAngleDegrees

inline void setMaxAngleDegrees(
    float maxAngleDegrees
)

Updated on 2024-03-17 at 12:58:44 -0600