maspack.image.dicom

Class DicomSlice

java.lang.Object

maspack.image.dicom.DicomSlice

public class DicomSlice
extends java.lang.Object

A single DICOM slice, with DICOM header information and image buffer

Author:

Antonio

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	DicomSlice.SliceInfo Size, location and series information of he DICOM slice

Constructor Summary

Constructors

Constructor and Description
DicomSlice(java.lang.String title, DicomHeader header, DicomPixelBuffer pixels) Construct a DICOM slice with a given title, DICOM header information, and image pixels

Method Summary

Modifier and Type	Method and Description
double	getColSpacing()
DicomHeader	getHeader()
RigidTransform3d	getImagePose()
DicomSlice.SliceInfo	getInfo()
double	getMaxIntensity()
double	getMinIntensity()
int	getNumChannels() Number of channels in the slice
int	getNumCols()
int	getNumRows()
DicomPixelBuffer	getPixelBuffer()
void	getPixels(int x, int y, int dx, int dy, int nx, int ny, DicomPixelBuffer.PixelType type, int scanline, DicomPixelInterpolator interp, java.nio.ByteBuffer pixels) Populates a buffer of pixels from the slice, interpolated using an interpolator
void	getPixels(int x, int y, int dx, int dy, int nx, int ny, DicomPixelBuffer.PixelType type, int scanline, DicomPixelInterpolator interp, int[] pixels, int offset) Populates a buffer of pixels from the slice, interpolated using an interpolator
DicomPixelBuffer.PixelType	getPixelType()
double	getPixelValue(int channel, int x, int y) Gets raw pixel value from the slice
double	getRowSpacing()
double	getThickness()

Methods inherited from class java.lang.Object

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

Constructor Detail

DicomSlice

public DicomSlice(java.lang.String title,
                  DicomHeader header,
                  DicomPixelBuffer pixels)

Construct a DICOM slice with a given title, DICOM header information, and image pixels

Method Detail

getPixelType

public DicomPixelBuffer.PixelType getPixelType()

Returns:

Returns the pixel type of the slice (byte/short grayscale, byte RGB)

getPixelBuffer

public DicomPixelBuffer getPixelBuffer()

Returns:

the underlying pixel buffer

getPixels

public void getPixels(int x,
                      int y,
                      int dx,
                      int dy,
                      int nx,
                      int ny,
                      DicomPixelBuffer.PixelType type,
                      int scanline,
                      DicomPixelInterpolator interp,
                      java.nio.ByteBuffer pixels)

Populates a buffer of pixels from the slice, interpolated using an interpolator

Parameters:

x - starting x voxel

y - starting y voxel

dx - voxel step in x direction

dy - voxel step in y direction

nx - number of voxels in x direction

ny - number of voxels in y direction

type - pixel type to convert to

scanline - width of line (stride between lines)

interp - interpolator for converting pixels to appropriate form

pixels - buffer array to fill

getPixels

public void getPixels(int x,
                      int y,
                      int dx,
                      int dy,
                      int nx,
                      int ny,
                      DicomPixelBuffer.PixelType type,
                      int scanline,
                      DicomPixelInterpolator interp,
                      int[] pixels,
                      int offset)

Populates a buffer of pixels from the slice, interpolated using an interpolator

Parameters:

x - starting x voxel

y - starting y voxel

dx - voxel step in x direction

dy - voxel step in y direction

nx - number of voxels in x direction

ny - number of voxels in y direction

type - pixel type to convert to

scanline - width of line (stride between lines)

interp - interpolator for converting pixels to appropriate form

pixels - buffer array to fill

offset - offset in output buffer to start filling values

getPixelValue

public double getPixelValue(int channel,
                            int x,
                            int y)

Gets raw pixel value from the slice

Parameters:

channel - image channel

x - starting x pixel

y - starting y pixel

Returns:

raw value

getNumChannels

public int getNumChannels()

Number of channels in the slice

getMaxIntensity

public double getMaxIntensity()

Returns:

maximum pixel intensity in the slice

getMinIntensity

public double getMinIntensity()

Returns:

minimum pixel intensity in the slice

getHeader

public DicomHeader getHeader()

Returns:

the DICOM header information for the slice

getImagePose

public RigidTransform3d getImagePose()

Returns:

position of first voxel in the slice image (top-left)

getInfo

public DicomSlice.SliceInfo getInfo()

Returns:

information extracted from the slice

getThickness

public double getThickness()

getRowSpacing

public double getRowSpacing()

getColSpacing

public double getColSpacing()

getNumRows

public int getNumRows()

getNumCols

public int getNumCols()