Package | Description |
---|---|
org.anchoranalysis.annotation.io.assignment.generator |
Generates output images to illustrate a
Assignment between annotations. |
org.anchoranalysis.annotation.io.bean.comparer |
What to compare an annotation (ground truth) against?
|
org.anchoranalysis.image.bean.displayer | |
org.anchoranalysis.image.core.stack |
Defines the key data object,
Stack , and related
classes. |
org.anchoranalysis.image.inference.segment |
Non-beans pertaining to segmentation of images via model inference.
|
org.anchoranalysis.image.io.object.output.rgb |
Writing an
ObjectCollection to the filesystem as
RGB raster-images. |
org.anchoranalysis.image.io.stack |
Non-bean classes for reading / writing a
Stack from
and to the filesystem. |
org.anchoranalysis.image.io.stack.output.box |
Base classes for generators that ultimately write only a bounding-box portion of a
Stack to the filesystem. |
org.anchoranalysis.image.io.stack.output.generator |
Base classes for generators that ultimately write a
Stack to the filesystem. |
org.anchoranalysis.mpp.io.marks |
Non-beans to help write visualization of
Mark s to the
filesystem. |
org.anchoranalysis.mpp.io.marks.generator | |
org.anchoranalysis.mpp.io.output |
Non-beans for writing data structures related to marked point processes from the file system.
|
org.anchoranalysis.mpp.segment.optimization |
Non-bean classes used in
org.anchoranalysis.mpp.segment.bean.optimization |
org.anchoranalysis.plugin.image.bean.thumbnail.stack |
Implementations of
ThumbnailFromStack . |
org.anchoranalysis.plugin.image.task.feature |
Non-bean classes pertaining to
Feature s as used in tasks. |
org.anchoranalysis.plugin.image.thumbnail |
Non-bean classes for thumbnail creation.
|
org.anchoranalysis.test.image |
Testing utilities and fixtures with no greater downstream dependency than anchor-image-io
or anchor-io-bioformats or anchor-imagej.
|
Constructor and Description |
---|
DrawColoredObjects(DisplayStack background,
boolean flatten,
int outlineWidth) |
Modifier and Type | Method and Description |
---|---|
List<NameValue<Stack>> |
MultipleComparer.createComparisonStacks(AnnotationWithMarks annotation,
DisplayStack background,
Path annotationPath,
ColorScheme colorScheme,
Path modelDirectory,
OperationContext context,
boolean debugMode)
|
Modifier and Type | Method and Description |
---|---|
DisplayStack |
StackDisplayer.deriveFrom(Channel channel)
Creates from a
Channel . |
DisplayStack |
StackDisplayer.deriveFrom(RGBStack rgbStack)
Derives a
DisplayStack from a RGBStack . |
DisplayStack |
StackDisplayer.deriveFrom(Stack stack)
Derives a
DisplayStack from a RGBStack . |
Modifier and Type | Method and Description |
---|---|
DisplayStack |
DisplayStack.extractSlice(int z)
Extract a particular z-slice from the
DisplayStack as a new stack, applying any
applicable conversion. |
DisplayStack |
DisplayStack.projectMax()
Creates a Maximum
Intensity Projection of each channel.
|
Modifier and Type | Method and Description |
---|---|
DisplayStack |
SegmentedObjectsAtScale.backgroundDisplayStack()
Like
SegmentedObjectsAtScale.background() but instead creates a DisplayStack . |
Modifier and Type | Method and Description |
---|---|
io.vavr.control.Either<Dimensions,DisplayStack> |
ObjectsAsRGBGenerator.getBackground()
A background image or dimensions to define an empty background.
|
Modifier and Type | Method and Description |
---|---|
static DrawObjectsGenerator |
DrawObjectsGenerator.outlineSingleColor(int outlineWidth,
DisplayStack background,
RGBColor color)
Creates a generator that draws an outline around objects on a background using a single color
for all objects.
|
static DrawObjectsGenerator |
DrawObjectsGenerator.outlineVariedColors(int numberColors,
int outlineWidth,
DisplayStack background)
Creates a generator that draws an outline around objects on a background using varied colors
for the objects.
|
static DrawObjectsGenerator |
DrawObjectsGenerator.withBackgroundAndColors(DrawObject drawObject,
DisplayStack background,
ColorIndex colorIndex)
Creates a generator that draws an object in a particular way with particular colors and
background.
|
Modifier and Type | Method and Description |
---|---|
protected RGBStack |
DrawObjectsGenerator.generateBackgroundRegion(ObjectCollectionWithProperties objects,
io.vavr.control.Either<Dimensions,DisplayStack> background) |
protected RGBStack |
DrawCroppedObjectsGenerator.generateBackgroundRegion(ObjectCollectionWithProperties objects,
io.vavr.control.Either<Dimensions,DisplayStack> background) |
protected abstract RGBStack |
ObjectsAsRGBGenerator.generateBackgroundRegion(ObjectCollectionWithProperties objects,
io.vavr.control.Either<Dimensions,DisplayStack> background)
Creates a
RGBStack containing the background, without objects being drawn upon it. |
static DrawObjectsGenerator |
DrawObjectsGenerator.outlineVariedColors(int numberColors,
int outlineWidth,
io.vavr.control.Either<Dimensions,DisplayStack> background)
Creates a generator that draws an outline around objects on a background using varied colors
for the objects.
|
void |
ObjectsAsRGBGenerator.setBackground(io.vavr.control.Either<Dimensions,DisplayStack> background)
A background image or dimensions to define an empty background.
|
Constructor and Description |
---|
DrawCroppedObjectsGenerator(DrawObject drawObject,
DisplayStack background,
Padding padding,
ColorIndex colors)
Create with a particular background and method for drawing-objects.
|
Constructor and Description |
---|
ObjectsAsRGBGenerator(DrawObject drawObject,
ObjectDrawAttributes attributes,
io.vavr.control.Either<Dimensions,DisplayStack> background) |
Modifier and Type | Method and Description |
---|---|
static RGBStack |
ConvertStackToRGB.convert(DisplayStack stack,
boolean alwaysNew)
Converts all of a
DisplayStack to a RGBStack . |
static RGBStack |
ConvertStackToRGB.convertCropped(DisplayStack stack,
BoundingBox box)
Converts a bounding-box region in
DisplayStack to a RGBStack . |
Modifier and Type | Method and Description |
---|---|
static ScaleableBackground |
ScaleableBackground.noScaling(DisplayStack stack)
Creates a background from a stack without any scaling.
|
static ScaleableBackground |
ScaleableBackground.scaleBy(DisplayStack stack,
ScaleFactor scaleFactor,
VoxelsResizer resizer)
Creates a background from a stack with scaling.
|
Modifier and Type | Method and Description |
---|---|
protected Stack |
DisplayStackGenerator.convertBeforeAssign(DisplayStack element) |
Constructor and Description |
---|
RasterGeneratorDelegateToDisplayStack(SingleFileTypeGenerator<T,DisplayStack> delegate,
boolean rgb) |
Modifier and Type | Method and Description |
---|---|
DisplayStack |
ColoredMarksWithDisplayStack.getStack() |
DisplayStack |
MarksWithDisplayStack.getStack() |
Modifier and Type | Method and Description |
---|---|
void |
ColoredMarksWithDisplayStack.setStack(DisplayStack stack) |
void |
MarksWithDisplayStack.setStack(DisplayStack stack) |
Constructor and Description |
---|
ColoredMarksWithDisplayStack(ColoredMarks marksColored,
DisplayStack stack) |
MarksWithDisplayStack(MarkCollection marks,
DisplayStack stack) |
Modifier and Type | Method and Description |
---|---|
protected abstract DisplayStack |
MarksGeneratorBase.background(DisplayStack stack) |
protected DisplayStack |
MarksFlattenedGenerator.background(DisplayStack stack) |
protected DisplayStack |
MarksGenerator.background(DisplayStack stack) |
Modifier and Type | Method and Description |
---|---|
protected abstract DisplayStack |
MarksGeneratorBase.background(DisplayStack stack) |
protected DisplayStack |
MarksFlattenedGenerator.background(DisplayStack stack) |
protected DisplayStack |
MarksGenerator.background(DisplayStack stack) |
Modifier and Type | Method and Description |
---|---|
static DisplayStack |
BackgroundCreator.createBackground(NamedProviderStore<Stack> stackCollection,
String backgroundStackName,
StackDisplayer displayer) |
Modifier and Type | Method and Description |
---|---|
DisplayStack |
DualStack.getBackground()
The background
|
Constructor and Description |
---|
DualStack(EnergyStack energyStack,
DisplayStack background) |
Modifier and Type | Method and Description |
---|---|
abstract DisplayStack |
ThumbnailFromStack.thumbnailFor(Stack stack)
Creates a thumbnail for a stack
|
DisplayStack |
ScaleToSize.thumbnailFor(Stack stack) |
Modifier and Type | Method and Description |
---|---|
CheckedSupplier<Optional<DisplayStack>,OperationFailedException> |
ResultsVectorWithThumbnail.getThumbnail() |
Modifier and Type | Method and Description |
---|---|
void |
FeatureResultsAndThumbnails.add(CheckedSupplier<LabelledResultsVector,OperationFailedException> resultToAdd,
CheckedSupplier<Optional<DisplayStack>,OperationFailedException> thumbnail)
Adds results, together with a thumbnail.
|
Constructor and Description |
---|
ResultsVectorWithThumbnail(CheckedSupplier<ResultsVector,OperationFailedException> resultsVector,
CheckedSupplier<Optional<DisplayStack>,OperationFailedException> thumbnail) |
Modifier and Type | Method and Description |
---|---|
DisplayStack |
ThumbnailBatch.thumbnailFor(T element)
Creates a thumbnail for an element in the batch
|
Modifier and Type | Method and Description |
---|---|
void |
WriteIntoDirectory.writeStack(String outputName,
DisplayStack stack) |
Modifier and Type | Method and Description |
---|---|
void |
WriteIntoDirectory.writeList(String outputName,
List<DisplayStack> stacks,
boolean always2D)
Writes a list of display-stacks
|
Copyright © 2010–2023 Owen Feehan, ETH Zurich, University of Zurich, Hoffmann-La Roche. All rights reserved.