Uses of Class
org.anchoranalysis.image.voxel.buffer.VoxelBuffer

Packages that use VoxelBuffer

Package	Description
org.anchoranalysis.image.voxel	Data-structures to store and manipulate image raster-data or voxels.
org.anchoranalysis.image.voxel.binary	The BinaryVoxels class and related operations.
org.anchoranalysis.image.voxel.buffer	A buffer of voxel-values, usually corresponding to a single z-slice in Voxels.
org.anchoranalysis.image.voxel.buffer.slice	A container with voxel-buffers for each z-slice.
org.anchoranalysis.image.voxel.convert.imglib2	Converts anchor data-structures to those used by ImgLib2.
org.anchoranalysis.image.voxel.factory	Creates new instances of Voxels and VoxelsUntyped with specific data-types.
org.anchoranalysis.image.voxel.iterator	Utilities to iterate over voxel-locations in images and sub-regions of images.
org.anchoranalysis.image.voxel.iterator.process.buffer	Functional-interfaces for processing different combinations of points and raw buffers, but not VoxelBuffer.
org.anchoranalysis.image.voxel.iterator.process.voxelbuffer	Functional-interfaces for processing different combinations of points and VoxelBuffer but not raw buffers.
org.anchoranalysis.image.voxel.resizer	Different interpolator methods to use when scaling voxels.
org.anchoranalysis.image.voxel.statistics	Statistics about aggregated voxel intensities.

Uses of VoxelBuffer in org.anchoranalysis.image.voxel

Methods in org.anchoranalysis.image.voxel that return VoxelBuffer

Modifier and Type	Method	Description
VoxelBuffer<T>	Voxels.slice(int z)	A VoxelBuffer corresponding to a particular z-slice.
<T> VoxelBuffer<T>	VoxelsUntyped.slice(int z)	A VoxelBuffer corresponding to a particular z-slice.

Methods in org.anchoranalysis.image.voxel with parameters of type VoxelBuffer

Modifier and Type	Method	Description
void	BoundedVoxels.replaceSlice(int sliceIndexToUpdate, VoxelBuffer<T> bufferToAssign)	Assigns a new buffer for a slice.
void	Voxels.replaceSlice(int sliceIndexToUpdate, VoxelBuffer<T> bufferToAssign)	Assigns a new buffer for a particular slice.

Uses of VoxelBuffer in org.anchoranalysis.image.voxel.binary

Methods in org.anchoranalysis.image.voxel.binary that return VoxelBuffer

Modifier and Type	Method	Description
VoxelBuffer<T>	BinaryVoxels.slice(int z)	A VoxelBuffer corresponding to a particular z-slice.

Uses of VoxelBuffer in org.anchoranalysis.image.voxel.buffer

Subclasses of VoxelBuffer in org.anchoranalysis.image.voxel.buffer

Modifier and Type	Class	Description
class	VoxelBufferUnsigned<T extends UnsignedBuffer>	A parent class for VoxelBuffer that accepts unsigned-buffers and implements some common operations.

Methods in org.anchoranalysis.image.voxel.buffer that return VoxelBuffer

Modifier and Type	Method	Description
static VoxelBuffer<FloatBuffer>[]	VoxelBufferFactory.allocateFloatArray(int size)	Creates an array of float voxel-buffers of given size.
static VoxelBuffer<UnsignedByteBuffer>	VoxelBufferFactory.allocateUnsignedByte(int capacity)	Allocates a new unsigned byte voxel-buffer of given size.
static VoxelBuffer<UnsignedByteBuffer>[]	VoxelBufferFactory.allocateUnsignedByteArray(int size)	Creates an array of unsigned byte voxel-buffers of given size.
static VoxelBuffer<UnsignedIntBuffer>[]	VoxelBufferFactory.allocateUnsignedIntArray(int size)	Creates an array of unsigned int voxel-buffers of given size.
static VoxelBuffer<UnsignedShortBuffer>	VoxelBufferFactory.allocateUnsignedShort(int capacity)	Allocates a new unsigned short voxel-buffers of given size.
static VoxelBuffer<UnsignedShortBuffer>[]	VoxelBufferFactory.allocateUnsignedShortArray(int size)	Creates an array of unsigned short voxel-buffers of given size.
VoxelBuffer<T>	SlidingBuffer.bufferRelative(int relativeIndex)	Returns the corresponding buffer at a relative z-slice index to the current focused z-slice.
abstract VoxelBuffer<T>	VoxelBuffer.duplicate()	Creates a deep copy of the current object, including deep-copying the associated buffer.
static VoxelBuffer<FloatBuffer>	VoxelBufferWrap.floatArray(float[] array)	Wraps an float-array into a voxel-buffer.
static VoxelBuffer<FloatBuffer>	VoxelBufferWrap.floatBuffer(FloatBuffer buffer)	Wraps a float buffer into a voxel-buffer.
VoxelBuffer<T>	SlidingBuffer.getCenter()	The buffer for the currently selected slice.
VoxelBuffer<T>	SlidingBuffer.getMinusOne()	The voxel-buffer for the slice with the currently selected slice's index -1 or null if it's the first slice.
VoxelBuffer<T>	SlidingBuffer.getPlusOne()	The voxel-buffer for the slice with the currently selected slice's index +1 or null if it's the final slice.
static VoxelBuffer<UnsignedByteBuffer>	VoxelBufferWrap.unsignedByteArray(byte[] array)	Wraps an existing array (encoding unsigned bytes as a signed array) as a voxel-buffer.
static VoxelBuffer<UnsignedByteBuffer>	VoxelBufferWrap.unsignedByteBuffer(UnsignedByteBuffer buffer)	Wraps an unsigned-byte buffer into a voxel-buffer.
static VoxelBuffer<UnsignedByteBuffer>	VoxelBufferWrap.unsignedByteRaw(ByteBuffer buffer)	Wraps an unsigned-byte buffer (represented by a NIO signed-buffer) into a voxel-buffer.
static VoxelBuffer<UnsignedIntBuffer>	VoxelBufferWrap.unsignedIntArray(int[] array)	Wraps an unsigned-int buffer into a voxel-buffer.
static VoxelBuffer<UnsignedIntBuffer>	VoxelBufferWrap.unsignedIntBuffer(UnsignedIntBuffer buffer)	Wraps an unsigned-int buffer (represented by a NIO signed-buffer) into a voxel-buffer.
static VoxelBuffer<UnsignedShortBuffer>	VoxelBufferWrap.unsignedShortArray(short[] array)	Wraps an existing array (encoding unsigned shorts as a signed array) as a voxel-buffer.
static VoxelBuffer<UnsignedShortBuffer>	VoxelBufferWrap.unsignedShortBuffer(UnsignedShortBuffer buffer)	Wraps an unsigned-short buffer into a voxel-buffer.
static VoxelBuffer<UnsignedShortBuffer>	VoxelBufferWrap.unsignedShortRaw(ShortBuffer buffer)	Wraps an unsigned-short buffer (represented by a NIO signed-buffer) into a voxel-buffer.

Methods in org.anchoranalysis.image.voxel.buffer with parameters of type VoxelBuffer

Modifier and Type	Method	Description
void	ProjectableBuffer.addVoxelBuffer(VoxelBuffer<T> voxels)	Adds a VoxelBuffer to the projection, as a single entity.
abstract void	VoxelBuffer.copyVoxelFrom(int destinationIndex, VoxelBuffer<T> source, int sourceIndex)	Copies one particular intensity-value from another VoxelBuffer into this buffer.

Uses of VoxelBuffer in org.anchoranalysis.image.voxel.buffer.slice

Methods in org.anchoranalysis.image.voxel.buffer.slice that return VoxelBuffer

Modifier and Type	Method	Description
VoxelBuffer<UnsignedByteBuffer>	FromByte.slice(int z)
VoxelBuffer<FloatBuffer>	FromFloat.slice(int z)
VoxelBuffer<UnsignedIntBuffer>	FromInt.slice(int z)
VoxelBuffer<UnsignedShortBuffer>	FromShort.slice(int z)
VoxelBuffer<T>	SliceBufferIndex.slice(int z)	A VoxelBuffer corresponding to a particular z-slice.

Methods in org.anchoranalysis.image.voxel.buffer.slice with parameters of type VoxelBuffer

Modifier and Type	Method	Description
void	FromByte.replaceSlice(int z, VoxelBuffer<UnsignedByteBuffer> sliceToAssign)
void	FromFloat.replaceSlice(int z, VoxelBuffer<FloatBuffer> sliceToAssign)
void	FromInt.replaceSlice(int z, VoxelBuffer<UnsignedIntBuffer> sliceToAssign)
void	FromShort.replaceSlice(int z, VoxelBuffer<UnsignedShortBuffer> sliceToAssign)
void	SliceBufferIndex.replaceSlice(int z, VoxelBuffer<T> sliceToAssign)	Replaces the voxels for a particular z-slice.

Method parameters in org.anchoranalysis.image.voxel.buffer.slice with type arguments of type VoxelBuffer

Modifier and Type	Method	Description
default void	SliceBufferIndex.iterateOverSlices(Consumer<VoxelBuffer<T>> sliceConsumer)	Calls sliceConsumer once for each slice with the respective buffer.

Uses of VoxelBuffer in org.anchoranalysis.image.voxel.convert.imglib2

Methods in org.anchoranalysis.image.voxel.convert.imglib2 with parameters of type VoxelBuffer

Modifier and Type	Method	Description
static net.imglib2.img.Img<net.imglib2.type.numeric.integer.UnsignedByteType>	ConvertToImg.fromByte(VoxelBuffer<UnsignedByteBuffer> buffer, Extent extent)	Creates an Img from a VoxelBuffer with an unsigned byte data-type.
static net.imglib2.img.Img<net.imglib2.type.numeric.real.FloatType>	ConvertToImg.fromFloat(VoxelBuffer<FloatBuffer> buffer, Extent extent)	Creates an Img from a VoxelBuffer with a float data-type.
static net.imglib2.img.Img<net.imglib2.type.numeric.integer.UnsignedShortType>	ConvertToImg.fromShort(VoxelBuffer<UnsignedShortBuffer> buffer, Extent extent)	Creates an Img from a VoxelBuffer with an unsigned short data-type.

Uses of VoxelBuffer in org.anchoranalysis.image.voxel.factory

Methods in org.anchoranalysis.image.voxel.factory with parameters of type VoxelBuffer

Modifier and Type	Method	Description
default Voxels<T>	VoxelsFactoryTypeBound.createForVoxelBuffer(VoxelBuffer<T> buffer, Extent extent)	Create a new Voxels that has been initialized with a single-slice's memory buffers.

Uses of VoxelBuffer in org.anchoranalysis.image.voxel.iterator

Methods in org.anchoranalysis.image.voxel.iterator with parameters of type VoxelBuffer

Modifier and Type	Method	Description
static <S, T> void	IterateVoxelsRemaining.withTwoBuffersWithoutOffset(VoxelBuffer<S> voxelBuffer1, VoxelBuffer<T> voxelBuffer2, ProcessBufferBinaryWithoutOffset<S,T> process)	Iterate over remaining voxels each voxel - with two associated buffers for each slice.

Uses of VoxelBuffer in org.anchoranalysis.image.voxel.iterator.process.buffer

Methods in org.anchoranalysis.image.voxel.iterator.process.buffer with parameters of type VoxelBuffer

Modifier and Type	Method	Description
void	ProcessBufferBinaryMixed.process(Point3i point, VoxelBuffer<S> buffer1, T buffer2, int offset1, int offset2)	Processes a voxel location in two buffers.

Uses of VoxelBuffer in org.anchoranalysis.image.voxel.iterator.process.voxelbuffer

Methods in org.anchoranalysis.image.voxel.iterator.process.voxelbuffer with parameters of type VoxelBuffer

Modifier and Type	Method	Description
void	ProcessVoxelBufferBinary.process(VoxelBuffer<S> buffer1, VoxelBuffer<T> buffer2, int offset)	Processes a voxel location in a buffer
void	ProcessVoxelBufferBinaryMixed.process(Point3i point, VoxelBuffer<S> buffer1, T buffer2, int offset)	Processes a voxel location in a buffer
void	ProcessVoxelBufferBinaryWithoutOffset.process(VoxelBuffer<S> buffer1, VoxelBuffer<T> buffer2)	Processes a voxel location in a buffer
void	ProcessVoxelBufferUnary.process(VoxelBuffer<T> buffer, int offset)	Processes a voxel location in a buffer.
void	ProcessVoxelBufferUnaryWithPoint.process(Point3i point, VoxelBuffer<T> buffer, int offset)	Processes a voxel location in a buffer.

Uses of VoxelBuffer in org.anchoranalysis.image.voxel.resizer

Methods in org.anchoranalysis.image.voxel.resizer that return VoxelBuffer

Modifier and Type	Method	Description
protected abstract VoxelBuffer<UnsignedByteBuffer>	VoxelsResizer.resizeByte(VoxelBuffer<UnsignedByteBuffer> voxelsSource, VoxelBuffer<UnsignedByteBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)	Interpolates from voxelsSource to voxelsDestination for unsigned 8-bit buffers.
protected VoxelBuffer<UnsignedByteBuffer>	VoxelsResizerExecutionTime.resizeByte(VoxelBuffer<UnsignedByteBuffer> voxelsSource, VoxelBuffer<UnsignedByteBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<UnsignedByteBuffer>	VoxelsResizerImgLib2.resizeByte(VoxelBuffer<UnsignedByteBuffer> voxelsSource, VoxelBuffer<UnsignedByteBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<UnsignedByteBuffer>	VoxelsResizerNone.resizeByte(VoxelBuffer<UnsignedByteBuffer> voxelsSource, VoxelBuffer<UnsignedByteBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
protected abstract VoxelBuffer<FloatBuffer>	VoxelsResizer.resizeFloat(VoxelBuffer<FloatBuffer> voxelsSource, VoxelBuffer<FloatBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)	Interpolates from voxelsSource to voxelsDestination for float buffers.
protected VoxelBuffer<FloatBuffer>	VoxelsResizerExecutionTime.resizeFloat(VoxelBuffer<FloatBuffer> voxelsSource, VoxelBuffer<FloatBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<FloatBuffer>	VoxelsResizerImgLib2.resizeFloat(VoxelBuffer<FloatBuffer> voxelsSource, VoxelBuffer<FloatBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<FloatBuffer>	VoxelsResizerNone.resizeFloat(VoxelBuffer<FloatBuffer> voxelsSource, VoxelBuffer<FloatBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
protected abstract VoxelBuffer<UnsignedShortBuffer>	VoxelsResizer.resizeShort(VoxelBuffer<UnsignedShortBuffer> voxelsSource, VoxelBuffer<UnsignedShortBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)	Interpolates from voxelsSource to voxelsDestination for unsigned 16-bit buffers.
protected VoxelBuffer<UnsignedShortBuffer>	VoxelsResizerExecutionTime.resizeShort(VoxelBuffer<UnsignedShortBuffer> voxelsSource, VoxelBuffer<UnsignedShortBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<UnsignedShortBuffer>	VoxelsResizerImgLib2.resizeShort(VoxelBuffer<UnsignedShortBuffer> voxelsSource, VoxelBuffer<UnsignedShortBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<UnsignedShortBuffer>	VoxelsResizerNone.resizeShort(VoxelBuffer<UnsignedShortBuffer> voxelsSource, VoxelBuffer<UnsignedShortBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)

Methods in org.anchoranalysis.image.voxel.resizer with parameters of type VoxelBuffer

Modifier and Type	Method	Description
protected abstract VoxelBuffer<UnsignedByteBuffer>	VoxelsResizer.resizeByte(VoxelBuffer<UnsignedByteBuffer> voxelsSource, VoxelBuffer<UnsignedByteBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)	Interpolates from voxelsSource to voxelsDestination for unsigned 8-bit buffers.
protected VoxelBuffer<UnsignedByteBuffer>	VoxelsResizerExecutionTime.resizeByte(VoxelBuffer<UnsignedByteBuffer> voxelsSource, VoxelBuffer<UnsignedByteBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<UnsignedByteBuffer>	VoxelsResizerImgLib2.resizeByte(VoxelBuffer<UnsignedByteBuffer> voxelsSource, VoxelBuffer<UnsignedByteBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<UnsignedByteBuffer>	VoxelsResizerNone.resizeByte(VoxelBuffer<UnsignedByteBuffer> voxelsSource, VoxelBuffer<UnsignedByteBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
protected abstract VoxelBuffer<FloatBuffer>	VoxelsResizer.resizeFloat(VoxelBuffer<FloatBuffer> voxelsSource, VoxelBuffer<FloatBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)	Interpolates from voxelsSource to voxelsDestination for float buffers.
protected VoxelBuffer<FloatBuffer>	VoxelsResizerExecutionTime.resizeFloat(VoxelBuffer<FloatBuffer> voxelsSource, VoxelBuffer<FloatBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<FloatBuffer>	VoxelsResizerImgLib2.resizeFloat(VoxelBuffer<FloatBuffer> voxelsSource, VoxelBuffer<FloatBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<FloatBuffer>	VoxelsResizerNone.resizeFloat(VoxelBuffer<FloatBuffer> voxelsSource, VoxelBuffer<FloatBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
protected abstract VoxelBuffer<UnsignedShortBuffer>	VoxelsResizer.resizeShort(VoxelBuffer<UnsignedShortBuffer> voxelsSource, VoxelBuffer<UnsignedShortBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)	Interpolates from voxelsSource to voxelsDestination for unsigned 16-bit buffers.
protected VoxelBuffer<UnsignedShortBuffer>	VoxelsResizerExecutionTime.resizeShort(VoxelBuffer<UnsignedShortBuffer> voxelsSource, VoxelBuffer<UnsignedShortBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<UnsignedShortBuffer>	VoxelsResizerImgLib2.resizeShort(VoxelBuffer<UnsignedShortBuffer> voxelsSource, VoxelBuffer<UnsignedShortBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)
VoxelBuffer<UnsignedShortBuffer>	VoxelsResizerNone.resizeShort(VoxelBuffer<UnsignedShortBuffer> voxelsSource, VoxelBuffer<UnsignedShortBuffer> voxelsDestination, Extent extentSource, Extent extentDestination)

Uses of VoxelBuffer in org.anchoranalysis.image.voxel.statistics

Methods in org.anchoranalysis.image.voxel.statistics with parameters of type VoxelBuffer

Modifier and Type	Method	Description
static Histogram	HistogramFactory.createFrom(VoxelBuffer<?> buffer)	Creates a Histogram of the aggregated voxel intensities in a VoxelBuffer.