Uses of Class
org.anchoranalysis.image.voxel.BoundedVoxels

Packages that use BoundedVoxels

Package	Description
org.anchoranalysis.image.voxel	Data-structures to store and manipulate image raster-data or voxels.
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.intersecting	Like org.anchoranalysis.image.voxel.iterator but refers to iterators that operation over the intersecting regions of two entities.
org.anchoranalysis.image.voxel.object	The fundamental data class that is an ObjectMask and related structures.

Uses of BoundedVoxels in org.anchoranalysis.image.voxel

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

Modifier and Type	Method	Description
BoundedVoxels<T>	BoundedVoxels.duplicate()	A deep-copy of the current structure.
BoundedVoxels<T>	BoundedVoxels.extractSlice(int sliceIndex)	Extracts a particular slice.
BoundedVoxels<T>	BoundedVoxels.growBuffer(Point3i growthNegative, Point3i growthPositive, Optional<Extent> clipRegion, VoxelsFactoryTypeBound<T> factory)	Grows the voxel buffer in the positive and negative directions by a certain amount.
BoundedVoxels<T>	BoundedVoxels.growToZ(int sizeZ, VoxelsFactoryTypeBound<T> factory)	Grows a single z-sliced BoundedVoxels by duplicating the slice across the z-dimension sizeZ number of times.
BoundedVoxels<T>	BoundedVoxels.mapBoundingBoxPreserveExtent(BoundingBox boundingBoxToAssign)	Applies a function to map the bounding-box to a new-value.
BoundedVoxels<T>	BoundedVoxels.projectMax()	A maximum-intensity projection (flattens in z dimension)
BoundedVoxels<T>	BoundedVoxels.region(BoundingBox box, boolean reuseIfPossible)	A (sub-)region of the voxels.
BoundedVoxels<T>	BoundedVoxels.regionIntersecting(BoundingBox box, int voxelValueForRest)	Like region(org.anchoranalysis.spatial.box.BoundingBox, boolean) but only expects a bounding-box that intersects at least partially.
BoundedVoxels<T>	BoundedVoxels.regionZ(int zMin, int zMax, VoxelsFactoryTypeBound<T> factory)	Creates an box with a subrange of the slices.
BoundedVoxels<T>	BoundedVoxels.replaceVoxels(Voxels<T> voxelsToAssign)	Replaces the voxels in the box.
BoundedVoxels<T>	BoundedVoxels.scale(ScaleFactor scaleFactor, VoxelsResizer resizer, Optional<Extent> clipTo)	Creates a scaled-version (in XY dimensions only) of the current bounding-box.

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

Modifier and Type	Method	Description
boolean	BoundedVoxels.equalsDeep(BoundedVoxels<?> other)	Performs a deep equality check, that includes checking that each voxel has an identical value.

Constructors in org.anchoranalysis.image.voxel with parameters of type BoundedVoxels

Constructor	Description
BoundedVoxels(BoundedVoxels<T> source)	Copy constructor.

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

Methods in org.anchoranalysis.image.voxel.factory that return BoundedVoxels

Modifier and Type	Method	Description
default BoundedVoxels<T>	VoxelsFactoryTypeBound.createBounded(BoundingBox box)	Creates and initializes voxels that correspond to a particular bounding-box region.

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

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

Modifier and Type	Method	Description
static Optional<Point3i>	IterateVoxelsEqualTo.untilFirstIntensityEqualTo(BoundedVoxels<UnsignedByteBuffer> voxels, byte equalToValue)	Iterates each voxel until a specific intensity value is found.

Uses of BoundedVoxels in org.anchoranalysis.image.voxel.iterator.intersecting

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

Modifier and Type	Method	Description
static int	CountVoxelsIntersectingBounded.countByte(BoundedVoxels<UnsignedByteBuffer> voxels1, BoundedVoxels<UnsignedByteBuffer> voxels2, PredicateTwoBytes predicate)	Counts all voxels in the intersection of two bounded-voxels of type BoundedVoxels that match a predicate.
static int	CountVoxelsIntersectingBounded.countByteMasked(Voxels<UnsignedByteBuffer> maskGlobal, byte onMaskGlobal, BoundedVoxels<UnsignedByteBuffer> voxels1, BoundedVoxels<UnsignedByteBuffer> voxels2, PredicateTwoBytes predicate)	Counts all voxels intersection of two bounded-voxels of type BoundedVoxels but only voxels that lie on an object-mask and match a predicate.
static <T> void	IterateVoxelsIntersectingBounded.withTwoBuffers(BoundedVoxels<T> voxels1, BoundedVoxels<T> voxels2, ProcessBufferBinary<T,T> process)	Iterates over the intersection of two bounded-voxels of type BoundedVoxels.
static void	IterateVoxelsIntersectingBounded.withTwoBuffers(Voxels<UnsignedByteBuffer> maskGlobal, byte onMaskGlobal, BoundedVoxels<UnsignedByteBuffer> voxels1, BoundedVoxels<UnsignedByteBuffer> voxels2, ProcessBufferBinary<UnsignedByteBuffer,UnsignedByteBuffer> process)	Iterates over the intersection of two bounded-voxels of type BoundedVoxels but only voxels that lie on an object-mask.
static <T> Optional<Point3i>	IterateVoxelsIntersectingBounded.withTwoBuffersUntil(BoundedVoxels<T> voxels1, BoundedVoxels<T> voxels2, PredicateBufferBinary<T> predicate)	Iterates over the intersection of two bounded-voxels of type BoundedVoxels until a predicate is satisfied.

Uses of BoundedVoxels in org.anchoranalysis.image.voxel.object

Methods in org.anchoranalysis.image.voxel.object that return BoundedVoxels

Modifier and Type	Method	Description
BoundedVoxels<UnsignedByteBuffer>	ObjectMask.boundedVoxels()	The underlying voxel memory buffers for the object-mask, exposed via BoundedVoxels.

Constructors in org.anchoranalysis.image.voxel.object with parameters of type BoundedVoxels

Constructor	Description
ObjectMask(BoundedVoxels<UnsignedByteBuffer> voxels)	Creates from a BoundedVoxels with UnsignedByteBuffer.
ObjectMask(BoundedVoxels<UnsignedByteBuffer> voxels, BinaryValuesInt binaryValues)	Creates from BoundedVoxels and corresponding BinaryValuesInt.