ij3d.image3d
Class FHTImage3D

java.lang.Object
  ij3d.image3d.Image3D
      ij3d.image3d.RealImage3D
          ij3d.image3d.FHTImage3D

public class FHTImage3D
extends RealImage3D

Description of the Class

Author:

cedric

Field Summary

Fields inherited from class ij3d.image3d.Image3D

BYTE, centerx, centery, centerz, FLOAT, max, mean, min, SHORT, sigma, sizex, sizey, sizez, stack, type, XAXIS, YAXIS, ZAXIS

Constructor Summary

FHTImage3D(Image3D img)
Constructor for the FHTImage3D object

FHTImage3D(Image3D img, boolean doTransform)
Constructor for the FHTImage3D object

FHTImage3D(ij.process.ImageProcessor ip)
Constructor for the FHTImage3D object

FHTImage3D(ij.process.ImageProcessor ip, boolean doTransform)
Constructor for the FHTImage3D object

FHTImage3D(ij.ImageStack stack)
Constructor for the FHTImage3D object the transform is automatically launched

FHTImage3D(ij.ImageStack stack, boolean doTransform)
Constructor for the FHTImage3D object

FHTImage3D(int sizex, int sizey, int sizez, boolean doTransform)
Constructor for the FHTImage3D object

Method Summary

void	bandPassFilter(float rayonmincut, float rayonminkeep, float rayonmaxkeep, float rayonmaxcut) Band Pass Filter
FHTImage3D	center() Description of the Method
static ij.ImageStack	crossCorrelation(Image3D img1, Image3D img2) Cross Correlation 3D on Image3D
static ij.ImageStack	crossCorrelation(ij.ImageStack img1, ij.ImageStack img2) Cross Correlation 3D on ImageStack
FHTImage3D	decenter() Description of the Method
FHTImage3D	doForwardTransform() Description of the Method
FHTImage3D	doInverseTransform() Description of the Method
FHTImage3D	duplicate() Description of the Method
void	FHT3D() Description of the Method
void	fill3D(FHTImage3D[] proj, Vector3D[] W) Fill 3D Reconstruction using central section theorem
double	getAngle(int x, int y, int z) Gets the angle of the FHTImage3D pixel
float	getImag(int x, int y, int z) Gets the imag attribute of the FHTImage3D object
static Pixel3D	getMaxCorrelation(FHTImage3D fht1, FHTImage3D fht2) Gets the maxCorrelation attribute of the FHTImage3D class
static Pixel3D	getMaxCorrelation(FHTImage3D fht1, FHTImage3D fht2, int RmaxX, int RmaxY, int RmaxZ) Gets the maxCorrelation attribute of the FHTImage3D class
static Pixel3D	getMaxCorrelation(Image3D img1, Image3D img2) Gets the maxCorrelation attribute of the FHTImage3D class
static Pixel3D	getMaxCorrelation(Image3D img1, Image3D img2, int RmaxX, int RmaxY, int RmaxZ) Gets the maxCorrelation attribute of the FHTImage3D class
static Pixel3D	getMaxCorrelation(ij.process.ImageProcessor img1, ij.process.ImageProcessor img2) Gets the maxCorrelation attribute of the FHTImage3D class
static Pixel3D	getMaxCorrelation(ij.process.ImageProcessor img1, ij.process.ImageProcessor img2, int RmaxX, int RmaxY) Gets the maxCorrelation attribute of the FHTImage3D class
static Pixel3D	getMaxCorrelation(ij.ImageStack img1, ij.ImageStack img2) Gets the maxCorrelation attribute of the FHTImage3D class
static Pixel3D	getMaxCorrelation(ij.ImageStack img1, ij.ImageStack img2, int RmaxX, int RmaxY, int RmaxZ) Gets the maxCorrelation attribute of the FHTImage3D class
double	getNorm(int x, int y, int z) Gets the norm of the FHTImage3D pixel
ij.ImageStack	getPowerSpectrum() Gets the powerSpectrum attribute of the FHTImage3D object
ij.ImageStack	getPowerSpectrum(boolean log) Gets the powerStack attribute of the FHTImage3D object
float	getReal(int x, int y, int z) Gets the real attribute of the FHTImage3D object
ij.ImageStack	getStack() Gets the stack attribute of the FHTImage3D object
static Pixel3D	getTranslation(FHTImage3D xcorr) Gets the translation attribute of the FHTImage3D class
static Pixel3D	getTranslation(FHTImage3D xcorr, int RmaxX, int RmaxY, int RmaxZ) Gets the translation attribute of the FHTImage3D class
protected float	getValue(int x, int y, int z) Gets the value attribute of the FHTImage3D object
FHTImage3D	RFilter() Description of the Method
FHTImage3D	RFilter(float coeff, boolean centre) Filtre R pour tomographie sur FFT centree
void	setCenter(boolean ce) Sets the center attribute of the FHTImage3D object
FHTImage3D	swapQuadrants() Description of the Method
static FHTImage3D	Xcorr(FHTImage3D fht1, FHTImage3D fht2) Description of the Method
static FHTImage3D	Xcorr(Image3D img1, Image3D img2) Description of the Method
static FHTImage3D	Xcorr(ij.process.ImageProcessor img1, ij.process.ImageProcessor img2) Description of the Method
static FHTImage3D	Xcorr(ij.ImageStack img1, ij.ImageStack img2) Description of the Method
void	zeroValue(int x, int y, int z) Description of the Method

Methods inherited from class ij3d.image3d.RealImage3D

add, add, add, addImage, addImage, addValue, applyTransform, autoApplyTransform, binarisation, centerCrop, createLocalMaximaImage, crop, dilatation3D, divideBy, erosion3D, fermeture3D, getHistogram, getMaximum, getMinimum, getPix, getPix, getPixel, getPixel, getPixel, getPixelTransformedI, getPixelTransformedI, getPow2Img, getPow2Img, getTransformPixel, isLocalMaximum, maximumFilter, medianFilter, minimumFilter, multiplyBy, multiplyBy, nonLinearLaplacianFilter, ouverture3D, project, project, projection, projectionInterpolated, putPixel, putPixel, resetImage, setPix, setSizes, tophatFilter

Methods inherited from class ij3d.image3d.Image3D

computeMinMax, createKernelEllipsoid, extract, getCenterX, getCenterY, getCenterZ, getFloatMaximum, getFloatMinimum, getMaxPixel, getMean, getNeighborhood, getNeighborhood, getNeighborhood3, getNeighborhoodKernel, getNeighborhoodLayer, getNeighborhoodSphere, getSigma, getSizex, getSizey, getSizez, getSumAbs, getType, insert, kill, radialDistribution, reset, split

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

FHTImage3D

public FHTImage3D(ij.ImageStack stack)

Constructor for the FHTImage3D object the transform is automatically launched

Parameters:

stack - original datas

FHTImage3D

public FHTImage3D(ij.ImageStack stack,
                  boolean doTransform)

Constructor for the FHTImage3D object

Parameters:

stack - Description of the Parameter

doTransform - Description of the Parameter

FHTImage3D

public FHTImage3D(ij.process.ImageProcessor ip)

Constructor for the FHTImage3D object

Parameters:

ip - Description of the Parameter

FHTImage3D

public FHTImage3D(ij.process.ImageProcessor ip,
                  boolean doTransform)

Constructor for the FHTImage3D object

Parameters:

ip - Description of the Parameter

doTransform - Description of the Parameter

FHTImage3D

public FHTImage3D(Image3D img)

Constructor for the FHTImage3D object

Parameters:

img - Description of the Parameter

FHTImage3D

public FHTImage3D(Image3D img,
                  boolean doTransform)

Constructor for the FHTImage3D object

Parameters:

img - Description of the Parameter

doTransform - Description of the Parameter

FHTImage3D

public FHTImage3D(int sizex,
                  int sizey,
                  int sizez,
                  boolean doTransform)

Constructor for the FHTImage3D object

Parameters:

sizex - Description of the Parameter

sizey - Description of the Parameter

sizez - Description of the Parameter

doTransform - Description of the Parameter

Method Detail

duplicate

public FHTImage3D duplicate()

Description of the Method

Returns:

Description of the Return Value

getStack

public ij.ImageStack getStack()

Gets the stack attribute of the FHTImage3D object

Overrides:

getStack in class RealImage3D

Returns:

The stack value

getPowerSpectrum

public ij.ImageStack getPowerSpectrum()

Gets the powerSpectrum attribute of the FHTImage3D object

Returns:

The powerSpectrum value

getPowerSpectrum

public ij.ImageStack getPowerSpectrum(boolean log)

Gets the powerStack attribute of the FHTImage3D object

Parameters:

log - Description of the Parameter

Returns:

The powerStack value

getValue

protected float getValue(int x,
                         int y,
                         int z)

Gets the value attribute of the FHTImage3D object

Parameters:

x - x coordinate

y - y coordinate

z - z coordinate

Returns:

The value

getReal

public float getReal(int x,
                     int y,
                     int z)

Gets the real attribute of the FHTImage3D object

Parameters:

x - x coordinate

y - y coordinate

z - z coordinate

Returns:

The real value

getNorm

public double getNorm(int x,
                      int y,
                      int z)

Gets the norm of the FHTImage3D pixel

Parameters:

x - x coordinate

y - y coordinate

z - z coordinate

Returns:

The power value

getAngle

public double getAngle(int x,
                       int y,
                       int z)

Gets the angle of the FHTImage3D pixel

Parameters:

x - x coordinate

y - y coordinate

z - z coordinate

Returns:

The angle value (in radians)

getImag

public float getImag(int x,
                     int y,
                     int z)

Gets the imag attribute of the FHTImage3D object

Parameters:

x - x coordinate

y - y coordinate

z - z coordinate

Returns:

The imag value

doForwardTransform

public FHTImage3D doForwardTransform()

Description of the Method

Returns:

Description of the Return Value

doInverseTransform

public FHTImage3D doInverseTransform()

Description of the Method

Returns:

Description of the Return Value

crossCorrelation

public static ij.ImageStack crossCorrelation(ij.ImageStack img1,
                                             ij.ImageStack img2)

Cross Correlation 3D on ImageStack

Parameters:

img1 - First stack

img2 - Second stack

Returns:

Correlation stack

crossCorrelation

public static ij.ImageStack crossCorrelation(Image3D img1,
                                             Image3D img2)

Cross Correlation 3D on Image3D

Parameters:

img1 - First Image3D

img2 - Second Image3D

Returns:

Correlation stack

Xcorr

public static FHTImage3D Xcorr(FHTImage3D fht1,
                               FHTImage3D fht2)

Description of the Method

Parameters:

fht1 - Description of the Parameter

fht2 - Description of the Parameter

Returns:

Description of the Return Value

Xcorr

public static FHTImage3D Xcorr(ij.ImageStack img1,
                               ij.ImageStack img2)

Description of the Method

Parameters:

img1 - Description of the Parameter

img2 - Description of the Parameter

Returns:

Description of the Return Value

Xcorr

public static FHTImage3D Xcorr(ij.process.ImageProcessor img1,
                               ij.process.ImageProcessor img2)

Description of the Method

Parameters:

img1 - Description of the Parameter

img2 - Description of the Parameter

Returns:

Description of the Return Value

Xcorr

public static FHTImage3D Xcorr(Image3D img1,
                               Image3D img2)

Description of the Method

Parameters:

img1 - Description of the Parameter

img2 - Description of the Parameter

Returns:

Description of the Return Value

getMaxCorrelation

public static Pixel3D getMaxCorrelation(ij.process.ImageProcessor img1,
                                        ij.process.ImageProcessor img2)

Gets the maxCorrelation attribute of the FHTImage3D class

Parameters:

img1 - Description of the Parameter

img2 - Description of the Parameter

Returns:

The maxCorrelation value

getMaxCorrelation

public static Pixel3D getMaxCorrelation(ij.ImageStack img1,
                                        ij.ImageStack img2)

Gets the maxCorrelation attribute of the FHTImage3D class

Parameters:

img1 - Description of the Parameter

img2 - Description of the Parameter

Returns:

The maxCorrelation value

getMaxCorrelation

public static Pixel3D getMaxCorrelation(FHTImage3D fht1,
                                        FHTImage3D fht2)

Gets the maxCorrelation attribute of the FHTImage3D class

Parameters:

fht1 - Description of the Parameter

fht2 - Description of the Parameter

Returns:

The maxCorrelation value

getMaxCorrelation

public static Pixel3D getMaxCorrelation(Image3D img1,
                                        Image3D img2)

Gets the maxCorrelation attribute of the FHTImage3D class

Parameters:

img1 - Description of the Parameter

img2 - Description of the Parameter

Returns:

The maxCorrelation value

getMaxCorrelation

public static Pixel3D getMaxCorrelation(Image3D img1,
                                        Image3D img2,
                                        int RmaxX,
                                        int RmaxY,
                                        int RmaxZ)

Gets the maxCorrelation attribute of the FHTImage3D class

Parameters:

img1 - Description of the Parameter

img2 - Description of the Parameter

RmaxX - Description of the Parameter

RmaxY - Description of the Parameter

RmaxZ - Description of the Parameter

Returns:

The maxCorrelation value

getMaxCorrelation

public static Pixel3D getMaxCorrelation(ij.ImageStack img1,
                                        ij.ImageStack img2,
                                        int RmaxX,
                                        int RmaxY,
                                        int RmaxZ)

Gets the maxCorrelation attribute of the FHTImage3D class

Parameters:

img1 - Description of the Parameter

img2 - Description of the Parameter

RmaxX - Description of the Parameter

RmaxY - Description of the Parameter

RmaxZ - Description of the Parameter

Returns:

The maxCorrelation value

getMaxCorrelation

public static Pixel3D getMaxCorrelation(ij.process.ImageProcessor img1,
                                        ij.process.ImageProcessor img2,
                                        int RmaxX,
                                        int RmaxY)

Gets the maxCorrelation attribute of the FHTImage3D class

Parameters:

img1 - Description of the Parameter

img2 - Description of the Parameter

RmaxX - Description of the Parameter

RmaxY - Description of the Parameter

Returns:

The maxCorrelation value

getMaxCorrelation

public static Pixel3D getMaxCorrelation(FHTImage3D fht1,
                                        FHTImage3D fht2,
                                        int RmaxX,
                                        int RmaxY,
                                        int RmaxZ)

Gets the maxCorrelation attribute of the FHTImage3D class

Parameters:

fht1 - Description of the Parameter

fht2 - Description of the Parameter

RmaxX - Description of the Parameter

RmaxY - Description of the Parameter

RmaxZ - Description of the Parameter

Returns:

The maxCorrelation value

getTranslation

public static Pixel3D getTranslation(FHTImage3D xcorr,
                                     int RmaxX,
                                     int RmaxY,
                                     int RmaxZ)

Gets the translation attribute of the FHTImage3D class

Parameters:

xcorr - Description of the Parameter

RmaxX - Description of the Parameter

RmaxY - Description of the Parameter

RmaxZ - Description of the Parameter

Returns:

The translation value

getTranslation

public static Pixel3D getTranslation(FHTImage3D xcorr)

Gets the translation attribute of the FHTImage3D class

Parameters:

xcorr - Description of the Parameter

Returns:

The translation value

center

public FHTImage3D center()

Description of the Method

Returns:

Description of the Return Value

setCenter

public void setCenter(boolean ce)

Sets the center attribute of the FHTImage3D object

Parameters:

ce - The new center value

decenter

public FHTImage3D decenter()

Description of the Method

Returns:

Description of the Return Value

swapQuadrants

public FHTImage3D swapQuadrants()

Description of the Method

Returns:

Description of the Return Value

FHT3D

public void FHT3D()

Description of the Method

RFilter

public FHTImage3D RFilter()

Description of the Method

Returns:

Description of the Return Value

RFilter

public FHTImage3D RFilter(float coeff,
                          boolean centre)

Filtre R pour tomographie sur FFT centree

Parameters:

coeff - Description of the Parameter

centre - Description of the Parameter

Returns:

Description of the Return Value

bandPassFilter

public void bandPassFilter(float rayonmincut,
                           float rayonminkeep,
                           float rayonmaxkeep,
                           float rayonmaxcut)

Band Pass Filter

Parameters:

rayonmincut - Description of the Parameter

rayonminkeep - Description of the Parameter

rayonmaxkeep - Description of the Parameter

rayonmaxcut - Description of the Parameter

zeroValue

public void zeroValue(int x,
                      int y,
                      int z)

Description of the Method

Parameters:

x - Description of the Parameter

y - Description of the Parameter

z - Description of the Parameter

fill3D

public void fill3D(FHTImage3D[] proj,
                   Vector3D[] W)

Fill 3D Reconstruction using central section theorem

Parameters:

proj - Array of FFT of the projections

W - Orientations of the images