Index

A C F I O P R T V W
All Classes All Packages

A

asByte(ImageProcessor) - Static method in class org.anchoranalysis.io.imagej.convert.ConvertToVoxelBuffer

Convert a ImageProcessor to VoxelBuffer<UnsignedByteBuffer>

asFloat(ImageProcessor) - Static method in class org.anchoranalysis.io.imagej.convert.ConvertToVoxelBuffer

Convert a ImageProcessor to VoxelBuffer<FloatBuffer>

asShort(ImageProcessor) - Static method in class org.anchoranalysis.io.imagej.convert.ConvertToVoxelBuffer

Convert a ImageProcessor to VoxelBuffer<UnsignedShortBuffer>

C

canValueRangeChange() - Method in class org.anchoranalysis.io.imagej.resizer.VoxelsResizerImageJ

ConvertFromImagePlus - Class in org.anchoranalysis.io.imagej.convert

Converts an ImagePlus into a channel or voxels.

ConvertToImagePlus - Class in org.anchoranalysis.io.imagej.convert

Converts a channel or voxels into a ImagePlus.

ConvertToImageProcessor - Class in org.anchoranalysis.io.imagej.convert

Converts other voxel data-structures (as used by Anchor) to an ImageJ ImageProcessor.

ConvertToVoxelBuffer - Class in org.anchoranalysis.io.imagej.convert

Converts a ImageProcessor to a voxel-buffer of particular data-type.

createVoxelsResizer() - Method in class org.anchoranalysis.io.imagej.bean.interpolator.ImageJ

F

fileFormat(StackWriteOptions) - Method in class org.anchoranalysis.io.imagej.bean.stack.writer.PNG

fileFormat(StackWriteOptions) - Method in class org.anchoranalysis.io.imagej.bean.stack.writer.Tiff

from(Channel) - Static method in class org.anchoranalysis.io.imagej.convert.ConvertToImagePlus

Creates an ImagePlus from a Channel.

from(Stack, boolean) - Static method in class org.anchoranalysis.io.imagej.convert.ConvertToImagePlus

Creates an ImagePlus from a Stack.

from(VoxelsUntyped) - Static method in class org.anchoranalysis.io.imagej.convert.ConvertToImagePlus

Creates an ImagePlus from a VoxelsUntyped.

from(VoxelsUntyped, int) - Static method in class org.anchoranalysis.io.imagej.convert.ConvertToImageProcessor

Creates a ImageProcessor by extracting a slice from a VoxelsUntyped.

fromByte(SliceBufferIndex<UnsignedByteBuffer>, int) - Static method in class org.anchoranalysis.io.imagej.convert.ConvertToImageProcessor

Creates a ImageProcessor by extracting a slice from a SliceBufferIndex of type UnsignedByteBuffer.

fromByte(VoxelBuffer<UnsignedByteBuffer>, Extent) - Static method in class org.anchoranalysis.io.imagej.convert.ConvertToImageProcessor

Creates a ImageProcessor from voxel-buffer (of type ByteBuffer) that is already a slice.

fromFloat(VoxelBuffer<FloatBuffer>, Extent) - Static method in class org.anchoranalysis.io.imagej.convert.ConvertToImageProcessor

Creates a ImageProcessor from voxel-buffer (of type FloatBuffer) that is already a slice.

fromShort(SliceBufferIndex<UnsignedShortBuffer>, int) - Static method in class org.anchoranalysis.io.imagej.convert.ConvertToImageProcessor

Creates a ImageProcessor by extracting a slice from a SliceBufferIndex of type UnsignedShortBuffer.

fromShort(VoxelBuffer<UnsignedShortBuffer>, Extent) - Static method in class org.anchoranalysis.io.imagej.convert.ConvertToImageProcessor

Creates a ImageProcessor from voxel-buffer (of type ShortBuffer) that is already a slice.

fromSlice(Voxels<UnsignedByteBuffer>, int, String) - Static method in class org.anchoranalysis.io.imagej.convert.ConvertToImagePlus

Creates an ImagePlus from one slice of a Voxels<UnsignedByteBuffer> voxels.

I

ImageJ - Class in org.anchoranalysis.io.imagej.bean.interpolator

Resizes with linear interpolation as implemented in ImageJ.

ImageJ() - Constructor for class org.anchoranalysis.io.imagej.bean.interpolator.ImageJ

ImageJConversionException - Exception in org.anchoranalysis.io.imagej.convert

When conversion to ImageJ data/type is not possible, or an error occurs during conversion.

ImageJConversionException(Exception) - Constructor for exception org.anchoranalysis.io.imagej.convert.ImageJConversionException

Creates with a message.

ImageJConversionException(String) - Constructor for exception org.anchoranalysis.io.imagej.convert.ImageJConversionException

Creates with a message.

ImageJRasterWriter - Class in org.anchoranalysis.io.imagej.bean.stack.writer

Base class for writing a raster using ImageJ.

ImageJRasterWriter() - Constructor for class org.anchoranalysis.io.imagej.bean.stack.writer.ImageJRasterWriter

O

org.anchoranalysis.io.imagej.bean.interpolator - package org.anchoranalysis.io.imagej.bean.interpolator

Performing interpolation with ImageJ.

org.anchoranalysis.io.imagej.bean.stack.writer - package org.anchoranalysis.io.imagej.bean.stack.writer

Raster-writers that use ImageJ to write images to the filesystem.

org.anchoranalysis.io.imagej.convert - package org.anchoranalysis.io.imagej.convert

Converts to and from ImageJ data-structures for images.

org.anchoranalysis.io.imagej.resizer - package org.anchoranalysis.io.imagej.resizer

Image interpolation when scaling using ImageJ.

P

PNG - Class in org.anchoranalysis.io.imagej.bean.stack.writer

Writes a PNG image using ImageJ.

PNG() - Constructor for class org.anchoranalysis.io.imagej.bean.stack.writer.PNG

R

resizeByte(VoxelBuffer<UnsignedByteBuffer>, VoxelBuffer<UnsignedByteBuffer>, Extent, Extent) - Method in class org.anchoranalysis.io.imagej.resizer.VoxelsResizerImageJ

resizeFloat(VoxelBuffer<FloatBuffer>, VoxelBuffer<FloatBuffer>, Extent, Extent) - Method in class org.anchoranalysis.io.imagej.resizer.VoxelsResizerImageJ

resizeShort(VoxelBuffer<UnsignedShortBuffer>, VoxelBuffer<UnsignedShortBuffer>, Extent, Extent) - Method in class org.anchoranalysis.io.imagej.resizer.VoxelsResizerImageJ

T

Tiff - Class in org.anchoranalysis.io.imagej.bean.stack.writer

Writes a TIFF image using ImageJ.

Tiff() - Constructor for class org.anchoranalysis.io.imagej.bean.stack.writer.Tiff

toChannel(ImagePlus, Optional<Resolution>) - Static method in class org.anchoranalysis.io.imagej.convert.ConvertFromImagePlus

Converts an ImagePlus to a Channel.

toVoxels(ImagePlus) - Static method in class org.anchoranalysis.io.imagej.convert.ConvertFromImagePlus

Converts an ImagePlus to a VoxelsUntyped.

V

VoxelsResizerImageJ - Class in org.anchoranalysis.io.imagej.resizer

Resizes with linear interpolation as implemented in ImageJ.

VoxelsResizerImageJ() - Constructor for class org.anchoranalysis.io.imagej.resizer.VoxelsResizerImageJ

W

writeRaster(FileSaver, String, boolean) - Method in class org.anchoranalysis.io.imagej.bean.stack.writer.ImageJRasterWriter

Writes an annotation to the filesystem at outPath.

writeRaster(FileSaver, String, boolean) - Method in class org.anchoranalysis.io.imagej.bean.stack.writer.PNG

writeRaster(FileSaver, String, boolean) - Method in class org.anchoranalysis.io.imagej.bean.stack.writer.Tiff

writeStack(Stack, Path, StackWriteOptions) - Method in class org.anchoranalysis.io.imagej.bean.stack.writer.ImageJRasterWriter

writeStackTime(Stack, Path, boolean) - Method in class org.anchoranalysis.io.imagej.bean.stack.writer.ImageJRasterWriter

Writes a stack as a time-sequence (many images together in a single file.).

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