Index
All Classes and Interfaces|All Packages|Constant Field Values
A
- actionCellDetection - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
- actionCellMembraneDetection - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
-
Deprecated.
- actionChannelTraining - Variable in class qupath.process.gui.ProcessingExtension.OtherCommands
- actionComposite - Variable in class qupath.process.gui.ProcessingExtension.ObjectClassificationCommands
- actionCreateRegions - Variable in class qupath.process.gui.ProcessingExtension.OtherCommands
- actionDelaunay - Variable in class qupath.process.gui.ProcessingExtension.OpenCVCommands
-
Deprecated.
- actionDensityMap - Variable in class qupath.process.gui.ProcessingExtension.OpenCVCommands
- actionDensityMapLoad - Variable in class qupath.process.gui.ProcessingExtension.OpenCVCommands
- actionDoG - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
- actionExtractRegion - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
- actionFastCellCounts - Variable in class qupath.process.gui.ProcessingExtension.OpenCVCommands
-
Deprecated.
- actionImageJDirectory - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
- actionImportROIs - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
- actionIntensity - Variable in class qupath.process.gui.ProcessingExtension.ObjectClassificationCommands
- actionLegacyMacroRunner - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
-
Deprecated.
- actionLoadObjectClassifier - Variable in class qupath.process.gui.ProcessingExtension.ObjectClassificationCommands
- actionLoadPixelClassifier - Variable in class qupath.process.gui.ProcessingExtension.PixelClassificationCommands
- actionMeasurement - Variable in class qupath.process.gui.ProcessingExtension.ObjectClassificationCommands
- actionObjectClassifier - Variable in class qupath.process.gui.ProcessingExtension.ObjectClassificationCommands
- actionPixelClassifier - Variable in class qupath.process.gui.ProcessingExtension.PixelClassificationCommands
- actionPixelCount - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
-
Deprecated.
- actionPositiveCellDetection - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
- actionScriptRunner - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
- actionShowImageJ - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
- actionSimpleThreshold - Variable in class qupath.process.gui.ProcessingExtension.PixelClassificationCommands
- actionSimpleTissueDetection - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
-
Deprecated.
- actionSLIC - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
- actionSnapshot - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
- actionSplitProject - Variable in class qupath.process.gui.ProcessingExtension.OtherCommands
- actionSubcellularDetection - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
-
Deprecated.
- actionTiles - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
- actionTrainingImage - Variable in class qupath.process.gui.ProcessingExtension.OtherCommands
- addRunnableTasks(ImageData<BufferedImage>, PathObject, List<Runnable>) - Method in class qupath.imagej.gui.ImageJMacroRunner
-
Deprecated.
- addToWorkflow() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Request that the script is stored in the workflow history when it is run for an
ImageData. - addToWorkflow(boolean) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Optionally request that the script is stored in the workflow history when it is run for an
ImageData. - ANNOTATION - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.PathObjectType
- ANNOTATIONS - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.ApplyToObjects
- ANY_CLASS_OR_NONE - Static variable in class qupath.process.gui.commands.density.DensityMapUI
-
Ignore classification entirely (i.e.
- ANY_POSITIVE_CLASS - Static variable in class qupath.process.gui.commands.density.DensityMapUI
-
Accept any positive classification, including 1+, 2+, 3+.
- ANY_SPECIFIED_CLASS - Static variable in class qupath.process.gui.commands.density.DensityMapUI
-
Any classification, but not no classification.
- applyToObjects(ImageJScriptRunner.ApplyToObjects) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Specify the objects that the script should be applied to.
B
- bindObjectClassifierNameInput(TextField, ObjectExpression<Project<BufferedImage>>) - Static method in class qupath.process.gui.commands.ml.ProjectClassifierBindings
-
Set styling for a text field to use object classifier names for the current project.
- bindPixelClassifierNameInput(TextField, ObjectExpression<Project<BufferedImage>>) - Static method in class qupath.process.gui.commands.ml.ProjectClassifierBindings
-
Set styling for a text field to use pixel classifier names for the current project.
- BoundaryStrategy - Class in qupath.process.gui.commands.ml
-
Helper class for handling the boundaries of training annotations when creating a pixel classifier.
- build() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Build a new
ImageJScriptRunnerwith the parameters specified in this builder. - build() - Method in class qupath.process.gui.commands.ui.SaveResourcePaneBuilder
-
Build the pane
- builder() - Static method in class qupath.imagej.gui.scripts.ImageJScriptRunner
-
Create a new builder for an instance of
ImageJScriptRunner. - builder(ImageJScriptRunner.ImageJScriptParameters) - Static method in class qupath.imagej.gui.scripts.ImageJScriptRunner
-
Create a new builder for an instance of
ImageJScriptRunner, initializing using the provided parameters.
C
- CELL - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.PathObjectType
- CellIntensityClassificationCommand - Class in qupath.process.gui.commands
-
Command to (sub)classify cells as Negative/Positive or Negative/1+/2+/3+ based on a single (usually intensity-based) measurement.
- CellIntensityClassificationCommand(QuPathGUI) - Constructor for class qupath.process.gui.commands.CellIntensityClassificationCommand
-
Constructor.
- CELLS - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.ApplyToObjects
- channelIndices(int...) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Optionally specify a subset of image channels to pass to ImageJ.
- channelNames(String...) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Optionally specify a subset of image channels to pass to ImageJ, based on channel names.
- channels(Collection<? extends ColorTransforms.ColorTransform>) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Optionally specify channels to pass to ImageJ.
- channels(ColorTransforms.ColorTransform, ColorTransforms.ColorTransform...) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Optionally specify channels to pass to ImageJ.
- ClassificationResolution - Class in qupath.process.gui.commands.ml
-
Wrapper for a
PixelCalibrationto be used to define classifier resolution. - clearChildObjects() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Request that the child objects are removed from any objects that are passed to the script runner.
- clearChildObjects(boolean) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Optionally request that the child objects are removed from any objects that are passed to the script runner.
- closeOpenImages(boolean) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Request that any images left open after the macro are closed.
- createButtonPane(QuPathGUI, ObjectExpression<ImageData<BufferedImage>>, ObjectExpression<DensityMaps.DensityMapBuilder>, StringExpression, ObjectExpression<PixelClassificationOverlay>, boolean) - Static method in class qupath.process.gui.commands.density.DensityMapUI
-
Create a pane containing standardized buttons associated with processing a density map (find hotspots, threshold, export map).
- CreateChannelTrainingImagesCommand - Class in qupath.process.gui.commands
-
Command to create training images based upon channel names, and add these to a project.
- CreateChannelTrainingImagesCommand(QuPathGUI) - Constructor for class qupath.process.gui.commands.CreateChannelTrainingImagesCommand
-
Constructor.
- CreateCompositeClassifierCommand - Class in qupath.process.gui.commands
-
Command to create a composite classifier by merging together two or more other classifiers.
- CreateCompositeClassifierCommand(QuPathGUI) - Constructor for class qupath.process.gui.commands.CreateCompositeClassifierCommand
-
Constructor.
- createDetectionOrPointAnnotation(ROI) - Static method in class qupath.imagej.gui.scripts.ImageJScriptRunner
-
Function to create an annotation object from any
PointsROI, and detection object from any otherROI. - createInstance(QuPathGUI) - Static method in class qupath.imagej.gui.scripts.ImageJScriptRunnerController
-
Create a new instance.
- createLoadDensityMapCommand(QuPathGUI) - Static method in class qupath.process.gui.commands.ui.LoadResourceCommand
-
Create a
Runnableto interactively load a density map and display it in all viewers. - createLoadPixelClassifierCommand(QuPathGUI) - Static method in class qupath.process.gui.commands.ui.LoadResourceCommand
-
Create a
Runnableto interactively load a pixel classifier and display it in all viewers. - createNewAnnotation(MouseEvent, double, double) - Method in class qupath.process.gui.WandToolEventHandler
- createObjectsFromROIs(ImagePlus, Collection<? extends Roi>, double, boolean, boolean, ImagePlane) - Static method in class qupathj.QuPath_Send_Overlay_to_QuPath
-
Turn an array of ImageJ ROIs into a list of QuPath PathObjects, optionally adding measurements as well.
- createObjectsFromROIs(ImagePlus, Collection<? extends Roi>, double, Function<ROI, PathObject>, boolean, ImagePlane) - Static method in class qupathj.QuPath_Send_Overlay_to_QuPath
-
Turn an array of ImageJ ROIs into a list of QuPath PathObjects, optionally adding measurements as well.
- createPixelClassifierButtons(ObjectExpression<ImageData<BufferedImage>>, ObjectExpression<PixelClassifier>, StringExpression) - Static method in class qupath.process.gui.commands.ml.PixelClassifierUI
-
Create a standard button pane for pixel classifiers, to create, measure and classify objects.
- CreateRegionAnnotationsCommand - Class in qupath.process.gui.commands
-
Command to help create annotations defining regions that will be further annotated for algorithm training.
- CreateRegionAnnotationsCommand(QuPathGUI) - Constructor for class qupath.process.gui.commands.CreateRegionAnnotationsCommand
-
Constructor.
- createRegionFilterCombo(OverlayOptions) - Static method in class qupath.process.gui.commands.ml.PixelClassifierUI
-
Create a
ComboBoxthat can be used to select the pixel classification region filter. - createSaveDensityMapPane(ObjectExpression<Project<BufferedImage>>, ObjectExpression<DensityMaps.DensityMapBuilder>, StringProperty) - Static method in class qupath.process.gui.commands.density.DensityMapUI
-
Create a pane that can be used to save a
DensityMaps.DensityMapBuilder, with standardized display and prompts. - createSavePixelClassifierPane(ObjectExpression<Project<BufferedImage>>, ObjectExpression<PixelClassifier>, StringProperty) - Static method in class qupath.process.gui.commands.ml.PixelClassifierUI
-
Create a pane that contains a text field and save button to allow a pixel classifier to be saved in a project.
- createShape(MouseEvent, double, double, boolean, Geometry) - Method in class qupath.process.gui.WandToolEventHandler
- createTrainingData(Collection<ImageData<BufferedImage>>) - Method in class qupath.process.gui.commands.ml.PixelClassifierTraining
-
Create training data, using a label map automatically generated from the available classifications.
- createTrainingData(ImageData<BufferedImage>) - Method in class qupath.process.gui.commands.ml.PixelClassifierTraining
-
Create training data, using a label map automatically generated from the available classifications.
- createTrainingDataForLabelMap(Collection<ImageData<BufferedImage>>, Map<PathClass, Integer>) - Method in class qupath.process.gui.commands.ml.PixelClassifierTraining
-
Get a classifier training map, using a predefined label map (which determines which classifications to use).
- CreateTrainingImageCommand - Class in qupath.process.gui.commands
-
Command to generate a
SparseImageServerfrom multiple image regions across a project. - CreateTrainingImageCommand() - Constructor for class qupath.process.gui.commands.CreateTrainingImageCommand
D
- DensityMapCommand - Class in qupath.process.gui.commands
-
Command for generating density maps from detections on an image.
- DensityMapCommand(QuPathGUI) - Constructor for class qupath.process.gui.commands.DensityMapCommand
-
Constructor.
- DensityMapDialog - Class in qupath.process.gui.commands.density
-
Dialog for interactively generating a custom density map.
- DensityMapDialog(QuPathGUI) - Constructor for class qupath.process.gui.commands.density.DensityMapDialog
-
Constructor.
- DensityMapUI - Class in qupath.process.gui.commands.density
-
UI elements associated with density maps.
- DensityMapUI() - Constructor for class qupath.process.gui.commands.density.DensityMapUI
- deregister() - Method in class qupath.process.gui.commands.density.DensityMapDialog
-
Deregister listeners.
- DETECTION - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.PathObjectType
- DETECTIONS - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.ApplyToObjects
- doAddToWorkflow() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.ImageJScriptParameters
-
Query whether the script should be logged in the history of the ImageData.
- doCloseOpenImages() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.ImageJScriptParameters
-
Request that any lingering open images are closed after the script has run.
- doCopy(ActionEvent) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunnerController
- doCut(ActionEvent) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunnerController
- doPaste(ActionEvent) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunnerController
- doRedo(ActionEvent) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunnerController
- doRemoveChildObjects() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.ImageJScriptParameters
-
Query whether child objects should be removed from the parent object after the script is complete.
- doSetOverlay() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.ImageJScriptParameters
-
Query whether the Overlay should be set when an image is passed to ImageJ.
- doSetRoi() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.ImageJScriptParameters
-
Query whether the Roi should be set when an image is passed to ImageJ.
- doUndo(ActionEvent) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunnerController
- downsample(DownsampleCalculator) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Specify how images should be downsampled when passing them to ImageJ.
E
- ensureCursorType(Cursor) - Method in class qupath.process.gui.WandToolEventHandler
- equals(Object) - Method in class qupath.process.gui.commands.ml.BoundaryStrategy
- equals(Object) - Method in class qupath.process.gui.commands.ml.ClassificationResolution
- ExportTrainingRegionsCommand - Class in qupath.process.gui.commands
-
Command to help export training regions as labelled images to train AI algorithms elsewhere.
- ExportTrainingRegionsCommand(QuPathGUI) - Constructor for class qupath.process.gui.commands.ExportTrainingRegionsCommand
-
Constructor.
- extractOverlay(PathObjectHierarchy, RegionRequest, OverlayOptions, Predicate<PathObject>) - Static method in class qupath.imagej.gui.IJExtension
-
Extract an ImageJ overlay for the specified region.
- extractROI(ImageServer<BufferedImage>, PathObject, RegionRequest, boolean) - Static method in class qupath.imagej.gui.IJExtension
-
Similar to
IJExtension.extractROI(ImageServer, ROI, RegionRequest, boolean), except that the title of the ImagePlus is set according to the parent object type (which is used to get the ROI). - extractROI(ImageServer<BufferedImage>, ROI, RegionRequest, boolean) - Static method in class qupath.imagej.gui.IJExtension
-
Extract a region of interest from an image as an ImageJ ImagePlus.
- extractROIWithOverlay(ImageServer<BufferedImage>, PathObject, PathObjectHierarchy, RegionRequest, boolean, OverlayOptions) - Static method in class qupath.imagej.gui.IJExtension
-
Extract an image region as an ImagePlus, optionally setting ImageJ Rois corresponding to QuPath objects.
F
- file(String) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Specify the path to a file containing the script or macro.
- FIXED_DOWNSAMPLE - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunnerController.ResolutionOption
-
Use a fixed downsample value;
- fixedDownsample(double) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Use a fixed downsample value when passing images to ImageJ.
- fromJson(String) - Static method in class qupath.imagej.gui.scripts.ImageJScriptRunner
-
Create a script runner from a JSON representation of
ImageJScriptRunner.ImageJScriptParameters. - fromMap(Map<String, ?>) - Static method in class qupath.imagej.gui.scripts.ImageJScriptRunner
-
Create a script runner from a map representation of
ImageJScriptRunner.ImageJScriptParameters. - fromParams(ImageJScriptRunner.ImageJScriptParameters) - Static method in class qupath.imagej.gui.scripts.ImageJScriptRunner
-
Create a script runner from the specified parameters.
G
- getActiveRoiToObjectFunction() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.ImageJScriptParameters
-
Get a function to convert an ImageJ active Roi into a QuPath object.
- getApplyToObjects() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.ImageJScriptParameters
-
Get the objects to which this script should be applied.
- getBoundaryClass(PathClass) - Method in class qupath.process.gui.commands.ml.BoundaryStrategy
-
Get the classification to be used for the annotation boundary, given the classification of the annotated region.
- getBoundaryStrategy() - Method in class qupath.process.gui.commands.ml.PixelClassifierTraining
-
Get the strategy for handling the boundaries of area annotations.
- getBoundaryThickness() - Method in class qupath.process.gui.commands.ml.BoundaryStrategy
-
Get the boundary thickness, in pixels.
- getBrushDiameter() - Method in class qupath.process.gui.WandToolEventHandler
-
Don't actually need the diameter for calculations here, but it's helpful for setting the cursor
- getChannels() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.ImageJScriptParameters
- getClassifyBoundaryStrategy(PathClass, double) - Static method in class qupath.process.gui.commands.ml.BoundaryStrategy
-
Create a boundary strategy that trains a classifier for a specific PathClass for annotation boundaries.
- getCurrentParent() - Method in class qupath.process.gui.WandToolEventHandler
- getDefaultResolutions(ImageData<?>, ClassificationResolution) - Static method in class qupath.process.gui.commands.ml.ClassificationResolution
-
Get a list of default resolutions to show, derived from
PixelCalibrationobjects. - getDerivedBoundaryStrategy(double) - Static method in class qupath.process.gui.commands.ml.BoundaryStrategy
-
Create a boundary strategy that trains a classifier for a PathClass derived from the original classification for annotation boundaries.
- getDescription() - Method in class qupath.imagej.gui.IJExtension
- getDescription() - Method in class qupath.imagej.gui.ImageJMacroRunner
-
Deprecated.
- getDescription() - Method in class qupath.process.gui.ProcessingExtension
- getDownsample() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.ImageJScriptParameters
-
Get the calculator used to determine how much to downsample image regions that will be send to ImageJ.
- getFeatureOp() - Method in class qupath.process.gui.commands.ml.PixelClassifierTraining
-
Get an
ImageDataOpused for feature calculation. - getImageJIcon(int, int) - Static method in class qupath.imagej.gui.IJExtension
-
Try to read the ImageJ icon from its jar.
- getImageJInstance() - Static method in class qupath.imagej.gui.IJExtension
-
Get an instance of ImageJ, or start one, for interactive use (with GUI displayed).
- getImageJPath() - Static method in class qupath.imagej.gui.IJExtension
-
Get the path for a local ImageJ installation, if set.
- getLabelMap() - Method in class qupath.process.gui.commands.ml.PixelClassifierTraining.ClassifierTrainingData
-
Get the map of classifications to labels.
- getLastResultsDescription() - Method in class qupath.imagej.gui.ImageJMacroRunner
-
Deprecated.
- getName() - Method in class qupath.imagej.gui.IJExtension
- getName() - Method in class qupath.imagej.gui.ImageJMacroRunner
-
Deprecated.
- getName() - Method in class qupath.process.gui.commands.ml.ClassificationResolution
-
Get the simple name for this resolution.
- getName() - Method in class qupath.process.gui.ProcessingExtension
- getObjectsToProcess(PathObjectHierarchy, ImageJScriptRunner.ApplyToObjects) - Static method in class qupath.imagej.gui.scripts.ImageJScriptRunner
-
Query which objects in a hierarchy would be used with the specified
ImageJScriptRunner.ApplyToObjectsvalue. - getOverlayRoiToObjectFunction() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.ImageJScriptParameters
-
Get a function to convert an ImageJ Roi on an Overlay into a QuPath object.
- getPadding() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.ImageJScriptParameters
-
Get the padding to add around the ROI.
- getParentObjects(ImageData<BufferedImage>) - Method in class qupath.imagej.gui.ImageJMacroRunner
-
Deprecated.
- getPixelCalibration() - Method in class qupath.process.gui.commands.ml.ClassificationResolution
-
Get the
PixelCalibrationused to apply this resolution. - getQuPathVersion() - Method in class qupath.imagej.gui.IJExtension
-
Returns the version stored within this jar, because it is matched to the QuPath version.
- getQuPathVersion() - Method in class qupath.process.gui.ProcessingExtension
-
Returns the version stored within this jar, because it is matched to the QuPath version.
- getResolution() - Method in class qupath.process.gui.commands.ml.PixelClassifierTraining
-
Get the resolution at which the training should occur.
- getScriptEngineName() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.ImageJScriptParameters
-
Get the name of the script engine to use, or null if no script engine is specified.
- getSkipBoundaryStrategy() - Static method in class qupath.process.gui.commands.ml.BoundaryStrategy
-
Create a boundary strategy that ignores boundaries, not using them for classifier training.
- getStage() - Method in class qupath.process.gui.commands.density.DensityMapDialog
-
Get the stage.
- getSupportedParentObjectClasses() - Method in class qupath.imagej.gui.ImageJMacroRunner
-
Deprecated.
- getTaskRunner() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.ImageJScriptParameters
-
Get a task runner for running script tasks.
- getText() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.ImageJScriptParameters
-
Get the text of the macro or script.
- getTitle() - Static method in class qupath.imagej.gui.scripts.ImageJScriptRunnerController
-
Get the title to use for this window.
- getTrainData() - Method in class qupath.process.gui.commands.ml.PixelClassifierTraining.ClassifierTrainingData
-
Get training data.
- getVersion() - Method in class qupath.process.gui.ProcessingExtension
- getViewer() - Method in class qupath.process.gui.WandToolEventHandler
- getWandSensitivity() - Static method in class qupath.process.gui.WandToolEventHandler
-
Query the wand sensitivity value, which influences how similar local intensity values must be for the wand region growing.
- getWandSigmaPixels() - Static method in class qupath.process.gui.WandToolEventHandler
-
Query the Gaussian sigma value used to smooth the image when applying the wand.
- getWandUseOverlays() - Static method in class qupath.process.gui.WandToolEventHandler
-
Query whether the wand tool should be influenced by pixel values painted on image overlays.
- GRAY - Enum constant in enum class qupath.process.gui.WandToolEventHandler.WandType
-
Grayscale image
- GROOVY - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunnerController.LanguageOption
-
Groovy language
- groovyText(String) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Specify the exact text for an ImageJ macro.
H
- handle(MouseEvent) - Method in class qupath.process.gui.WandToolEventHandler
- hashCode() - Method in class qupath.process.gui.commands.ml.BoundaryStrategy
- hashCode() - Method in class qupath.process.gui.commands.ml.ClassificationResolution
I
- IJExtension - Class in qupath.imagej.gui
-
QuPath extension & associated static helper methods used to support integration of ImageJ with QuPath.
- IJExtension() - Constructor for class qupath.imagej.gui.IJExtension
- IJExtension.IJExtensionCommands - Class in qupath.imagej.gui
-
Commands to install with the ImageJ extension.
- IMAGE - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.ApplyToObjects
- ImageJMacroRunner - Class in qupath.imagej.gui
-
Deprecated.
- ImageJMacroRunner(QuPathGUI) - Constructor for class qupath.imagej.gui.ImageJMacroRunner
-
Deprecated.Constructor.
- imageJPathProperty() - Static method in class qupath.imagej.gui.IJExtension
-
Property representing the path to a local ImageJ installation, or null if no path has been set.
- ImageJScriptRunner - Class in qupath.imagej.gui.scripts
-
Class to run ImageJ macros and scripts.
- ImageJScriptRunner(ImageJScriptRunner.ImageJScriptParameters) - Constructor for class qupath.imagej.gui.scripts.ImageJScriptRunner
- ImageJScriptRunner.ApplyToObjects - Enum Class in qupath.imagej.gui.scripts
-
Enum representing the objects that the script should be applied to.
- ImageJScriptRunner.Builder - Class in qupath.imagej.gui.scripts
- ImageJScriptRunner.ImageJScriptParameters - Class in qupath.imagej.gui.scripts
-
Class to store parameters used to run ImageJ macros or scripts from QuPath.
- ImageJScriptRunner.PathObjectType - Enum Class in qupath.imagej.gui.scripts
- ImageJScriptRunnerController - Class in qupath.imagej.gui.scripts
-
Controller class for the ImageJ script runner.
- ImageJScriptRunnerController.LanguageOption - Enum Class in qupath.imagej.gui.scripts
-
Options for the script language.
- ImageJScriptRunnerController.ResolutionOption - Enum Class in qupath.imagej.gui.scripts
-
Options for specifying how the resolution of an image region is determined.
- installDefaultFeatureClassificationBuilder(ImageDataTransformerBuilder) - Static method in class qupath.process.gui.commands.ml.PixelClassifierPane
-
Add to the list of default feature calculator builders that will be available when this pane is opened.
- installExtension(QuPathGUI) - Method in class qupath.imagej.gui.IJExtension
- installExtension(QuPathGUI) - Method in class qupath.process.gui.ProcessingExtension
L
- LAB_DISTANCE - Enum constant in enum class qupath.process.gui.WandToolEventHandler.WandType
-
Color image converted to CIELAB, Euclidean distance calculated
- labelText(String) - Method in class qupath.process.gui.commands.ui.SaveResourcePaneBuilder
-
Prompt to include beside the resource name text field
- LARGEST_DIMENSION - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunnerController.ResolutionOption
-
Resize so that the width and height are ≤ a fixed length;
- LoadResourceCommand<S> - Class in qupath.process.gui.commands.ui
-
Create commands for displaying pixel classifiers and density maps.
M
- MACRO - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunnerController.LanguageOption
-
ImageJ macro language
- macroText(String) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Specify the exact text for an ImageJ macro.
- main(String[]) - Static method in class qupath.imagej.gui.scripts.ImageJScriptRunner
-
Example program to log a script.
- maxDimension(int) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Resize images to have a width and height ≤ a specified value when passing images to ImageJ.
- mouseClicked(MouseEvent) - Method in class qupath.process.gui.WandToolEventHandler
- mouseLocationToImage(MouseEvent, boolean, boolean) - Method in class qupath.process.gui.WandToolEventHandler
N
- NONE - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.PathObjectType
- nThreads(int) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Specify the number of parallel threads to use.
O
- ObjectClassifierCommand - Class in qupath.process.gui.commands
-
Command used to create and show a suitable dialog box for interactive display of OpenCV classifiers.
- ObjectClassifierCommand(QuPathGUI) - Constructor for class qupath.process.gui.commands.ObjectClassifierCommand
-
Constructor.
- ObjectClassifierLoadCommand - Class in qupath.process.gui.commands
-
Command to apply a pre-trained object classifier to an image.
- ObjectClassifierLoadCommand(QuPathGUI) - Constructor for class qupath.process.gui.commands.ObjectClassifierLoadCommand
-
Constructor.
- openMacro(Path) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunnerController
- overlayToAnnotations() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Convert Rois on the overlay of the current image at the end of the script to QuPath annotation objects.
- overlayToDetections() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Convert Rois on the overlay of the current image at the end of the script to QuPath detection objects.
- overlayToObjects(ImageJScriptRunner.PathObjectType) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Convert Rois on the overlay of the current image at the end of the script to the specified QuPath object type.
- overlayToTiles() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Convert Rois on the overlay of the current image at the end of the script to QuPath tile objects.
P
- padding(int) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Specify how much padding to add around the ROI.
- parseArgument(ImageData<BufferedImage>, String) - Method in class qupath.imagej.gui.ImageJMacroRunner
-
Deprecated.
- PIXEL_SIZE - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunnerController.ResolutionOption
-
Resize to a target pixel size.
- PixelClassifierCommand - Class in qupath.process.gui.commands
-
Open GUI for the current viewer to train a new pixel classifier.
- PixelClassifierCommand() - Constructor for class qupath.process.gui.commands.PixelClassifierCommand
- PixelClassifierPane - Class in qupath.process.gui.commands.ml
-
Main user interface for interactively training a
PixelClassifier. - PixelClassifierPane(QuPathGUI) - Constructor for class qupath.process.gui.commands.ml.PixelClassifierPane
-
Constructor.
- PixelClassifierTraining - Class in qupath.process.gui.commands.ml
-
Helper class for training a pixel classifier.
- PixelClassifierTraining(ImageDataOp) - Constructor for class qupath.process.gui.commands.ml.PixelClassifierTraining
-
Create a new pixel classifier helper, to support generating training data.
- PixelClassifierTraining.ClassifierTrainingData - Class in qupath.process.gui.commands.ml
-
Wrapper for training data.
- PixelClassifierUI - Class in qupath.process.gui.commands.ml
-
Helper class for generating standardized UI components for pixel classification.
- PixelClassifierUI() - Constructor for class qupath.process.gui.commands.ml.PixelClassifierUI
- pixelSize(PixelCalibration) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Resize images to have a target pixel value when passing images to ImageJ.
- pixelSizeMicrons(double) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Resize images to have a target pixel value in µm when passing images to ImageJ.
- ProcessingExtension - Class in qupath.process.gui
-
General-purpose processing and machine learning commands.
- ProcessingExtension() - Constructor for class qupath.process.gui.ProcessingExtension
- ProcessingExtension.ObjectClassificationCommands - Class in qupath.process.gui
- ProcessingExtension.OpenCVCommands - Class in qupath.process.gui
-
Commands based on OpenCV.
- ProcessingExtension.OtherCommands - Class in qupath.process.gui
- ProcessingExtension.PixelClassificationCommands - Class in qupath.process.gui
- project(ObjectExpression<Project<BufferedImage>>) - Method in class qupath.process.gui.commands.ui.SaveResourcePaneBuilder
-
Current project
- ProjectClassifierBindings - Class in qupath.process.gui.commands.ml
-
Class to help with formatting text fields for entering pixel and object classifier names.
- ProjectClassifierBindings() - Constructor for class qupath.process.gui.commands.ml.ProjectClassifierBindings
- promptToCreateNewMacro() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunnerController
- promptToCreateObjects(ImageData<BufferedImage>, PixelClassifier, String) - Static method in class qupath.process.gui.commands.ml.PixelClassifierUI
-
Prompt the user to create objects directly from the pixels of an
ImageServer. - promptToCreateTrainingImage(Project<BufferedImage>, List<PathClass>) - Static method in class qupath.process.gui.commands.CreateTrainingImageCommand
-
Prompt to create a training image, based upon annotations throughout a project.
Q
- QuPath_Send_Overlay_to_QuPath - Class in qupathj
-
ImageJ plugin for sending back all the ROIs on an ImageJ overlay to QuPath.
- QuPath_Send_Overlay_to_QuPath() - Constructor for class qupathj.QuPath_Send_Overlay_to_QuPath
- QuPath_Send_ROI_to_QuPath - Class in qupathj
-
ImageJ plugin for sending back the active ROI from ImageJ to QuPath.
- QuPath_Send_ROI_to_QuPath() - Constructor for class qupathj.QuPath_Send_ROI_to_QuPath
- qupath.imagej.gui - package qupath.imagej.gui
-
User interface commands and extensions linking ImageJ and QuPath.
- qupath.imagej.gui.scripts - package qupath.imagej.gui.scripts
-
Classes for running ImageJ macros through QuPath.
- qupath.process.gui - package qupath.process.gui
-
General-purpose image processing and machine learning commands.
- qupath.process.gui.commands - package qupath.process.gui.commands
-
QuPath commands relevant for machine learning.
- qupath.process.gui.commands.density - package qupath.process.gui.commands.density
-
UI classes to support density maps.
- qupath.process.gui.commands.ml - package qupath.process.gui.commands.ml
-
Interfaces and helper classes for using machine learning in QuPath.
- qupath.process.gui.commands.ui - package qupath.process.gui.commands.ui
-
Reusable UI classes to support processing commands.
- qupathj - package qupathj
-
ImageJ plugins to install within QuPath's embedded ImageJ instance to enable exchanging ROIs and objects.
R
- refineGeometryByParent(Geometry) - Method in class qupath.process.gui.WandToolEventHandler
- refineROIByParent(ROI) - Method in class qupath.process.gui.WandToolEventHandler
- requestParentClipping(MouseEvent) - Method in class qupath.process.gui.WandToolEventHandler
- requestPixelSnapping() - Method in class qupath.process.gui.WandToolEventHandler
- resetConstrainingObjects() - Method in class qupath.process.gui.WandToolEventHandler
- RGB - Enum constant in enum class qupath.process.gui.WandToolEventHandler.WandType
-
Color image (default behavior in v0.1.2 and before)
- roiToAnnotation() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Convert any active Roi at the end of the script to a QuPath annotation object.
- roiToDetection() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Convert any active Roi at the end of the script to a QuPath detection object.
- roiToObject(ImageJScriptRunner.PathObjectType) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Convert any active Roi at the end of the script to the specified QuPath object type.
- roiToTile() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Convert any active Roi at the end of the script to a QuPath tile object.
- run() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner
-
Run the script for the 'current' image data, as requested from
QP. - run() - Method in class qupath.process.gui.commands.CellIntensityClassificationCommand
- run() - Method in class qupath.process.gui.commands.CreateChannelTrainingImagesCommand
- run() - Method in class qupath.process.gui.commands.CreateCompositeClassifierCommand
- run() - Method in class qupath.process.gui.commands.CreateRegionAnnotationsCommand
- run() - Method in class qupath.process.gui.commands.DensityMapCommand
- run() - Method in class qupath.process.gui.commands.ExportTrainingRegionsCommand
- run() - Method in class qupath.process.gui.commands.ObjectClassifierCommand
- run() - Method in class qupath.process.gui.commands.ObjectClassifierLoadCommand
- run() - Method in class qupath.process.gui.commands.PixelClassifierCommand
- run() - Method in class qupath.process.gui.commands.SimpleThresholdCommand
- run() - Method in class qupath.process.gui.commands.SingleMeasurementClassificationCommand
- run() - Method in class qupath.process.gui.commands.SplitProjectTrainingCommand
- run() - Method in class qupath.process.gui.commands.ui.LoadResourceCommand
- run(String) - Method in class qupathj.QuPath_Send_Overlay_to_QuPath
- run(String) - Method in class qupathj.QuPath_Send_ROI_to_QuPath
- run(ImageData<BufferedImage>) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner
-
Run the script for the specified image data.
- runPlugin(TaskRunner, ImageData<BufferedImage>, String) - Method in class qupath.imagej.gui.ImageJMacroRunner
-
Deprecated.
S
- savedName(StringProperty) - Method in class qupath.process.gui.commands.ui.SaveResourcePaneBuilder
-
Property to store the saved name; this is useful if the name is required externally
- SaveResourcePaneBuilder<T> - Class in qupath.process.gui.commands.ui
-
Small JavaFX pane to support saving object/pixel classifiers and density maps within a project in a standardized way.
- SaveResourcePaneBuilder(Class<T>, ObjectExpression<? extends T>) - Constructor for class qupath.process.gui.commands.ui.SaveResourcePaneBuilder
-
Constructor.
- scriptEngine(String) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Specify the name of any script engine to use.
- scriptFile(File) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Specify a file containing the script or macro.
- scriptFile(Path) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Specify a path to the script or macro.
- SELECTED - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.ApplyToObjects
- SEP - Variable in class qupath.process.gui.ProcessingExtension.ObjectClassificationCommands
- SEP - Variable in class qupath.process.gui.ProcessingExtension.PixelClassificationCommands
- SEP_0 - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
- SEP_1 - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
- SEP_2 - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
- SEP_2B - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
- SEP_3 - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
- SEP_4 - Variable in class qupath.imagej.gui.IJExtension.IJExtensionCommands
- setBoundaryStrategy(BoundaryStrategy) - Method in class qupath.process.gui.commands.ml.PixelClassifierTraining
-
Set the strategy for handling the boundaries of area annotations.
- setFeatureOp(ImageDataOp) - Method in class qupath.process.gui.commands.ml.PixelClassifierTraining
-
Set the
ImageDataOpused to calculate features. - setImageJOverlay() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Add any QuPath objects within the field of view to an ImageJ overlay.
- setImageJOverlay(boolean) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Optionally add any QuPath objects within the field of view to an ImageJ overlay.
- setImageJPath(String) - Static method in class qupath.imagej.gui.IJExtension
-
Set the path for a local ImageJ installation, if required.
- setImageJRoi() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Set the ROI for the QuPath object being set as a Roi on the ImagePlus.
- setImageJRoi(boolean) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Optionally set the ROI for the QuPath object being set as a Roi on the ImagePlus.
- setResolution(PixelCalibration) - Method in class qupath.process.gui.commands.ml.PixelClassifierTraining
-
Set the resolution at which the training should occur.
- setThickness(BoundaryStrategy, double) - Static method in class qupath.process.gui.commands.ml.BoundaryStrategy
-
Create a boundary strategy with the specified thickness.
- setWandSensitivity(double) - Static method in class qupath.process.gui.WandToolEventHandler
-
Set the wand sensitivity value, which influences how similar local intensity values must be for the wand region growing.
- setWandSigmaPixels(double) - Static method in class qupath.process.gui.WandToolEventHandler
-
Set the Gaussian sigma value used to smooth the image when applying the wand.
- setWandUseOverlays(boolean) - Static method in class qupath.process.gui.WandToolEventHandler
-
Set whether the wand tool should be influenced by pixel values painted on image overlays.
- SimpleThresholdCommand - Class in qupath.process.gui.commands
-
Apply simple thresholding to an image via the pixel classification framework to support thresholding at any resolution, optionally with visual feedback via an overlay.
- SimpleThresholdCommand(QuPathGUI) - Constructor for class qupath.process.gui.commands.SimpleThresholdCommand
-
Constructor.
- SingleMeasurementClassificationCommand - Class in qupath.process.gui.commands
-
Command to (sub)classify objects based on a single measurement.
- SingleMeasurementClassificationCommand(QuPathGUI) - Constructor for class qupath.process.gui.commands.SingleMeasurementClassificationCommand
-
Constructor.
- SplitProjectTrainingCommand - Class in qupath.process.gui.commands
-
Divide a project into training, validation and test sets but flagging individual image entries.
- SplitProjectTrainingCommand(QuPathGUI) - Constructor for class qupath.process.gui.commands.SplitProjectTrainingCommand
-
Constructor.
T
- taskRunner(TaskRunner) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Provide an optional task runner.
- test() - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner
-
Test the script for the 'current' image data, as requested from
QP. - test(ImageData<BufferedImage>) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner
-
Test the script for the specified image data.
- text(String) - Method in class qupath.imagej.gui.scripts.ImageJScriptRunner.Builder
-
Specify the exact text for the script or macro.
- textFieldPrompt(String) - Method in class qupath.process.gui.commands.ui.SaveResourcePaneBuilder
-
Prompt to include beside the resource name text field
- TILE - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.PathObjectType
- TILES - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.ApplyToObjects
- title(String) - Method in class qupath.process.gui.commands.ui.SaveResourcePaneBuilder
-
Title to display in any dialogs
- TMA_CORE - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.PathObjectType
- TMA_CORES - Enum constant in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.ApplyToObjects
- tooltip(ObservableValue<String>) - Method in class qupath.process.gui.commands.ui.SaveResourcePaneBuilder
-
Text to include in any tooltip.
- toString() - Method in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.ApplyToObjects
- toString() - Method in enum class qupath.imagej.gui.scripts.ImageJScriptRunnerController.ResolutionOption
- toString() - Method in class qupath.process.gui.commands.ml.BoundaryStrategy
- toString() - Method in class qupath.process.gui.commands.ml.ClassificationResolution
- TRAIN_VALIDATION_TEST_METADATA_KEY - Static variable in class qupath.process.gui.commands.SplitProjectTrainingCommand
-
Metadata key for the flag indicating the image type (Train, Validation, Test or None).
U
- updateDefaults(ImageData<BufferedImage>) - Method in class qupath.process.gui.commands.density.DensityMapDialog
-
Update default parameters with a specified
ImageData. - updatingConstrainingObjects(QuPathViewer, double, double, Collection<PathObject>) - Method in class qupath.process.gui.WandToolEventHandler
- useOverlays - Variable in class qupath.process.gui.WandToolEventHandler.WandPreferences
V
- VALUE_NONE - Static variable in class qupath.process.gui.commands.SplitProjectTrainingCommand
-
Metadata value for unassigned images.
- VALUE_TEST - Static variable in class qupath.process.gui.commands.SplitProjectTrainingCommand
-
Metadata value for test images.
- VALUE_TRAINING - Static variable in class qupath.process.gui.commands.SplitProjectTrainingCommand
-
Metadata value for training images.
- VALUE_VALIDATION - Static variable in class qupath.process.gui.commands.SplitProjectTrainingCommand
-
Metadata value for validation images.
- valueOf(String) - Static method in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.ApplyToObjects
-
Returns the enum constant of this class with the specified name.
- valueOf(String) - Static method in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.PathObjectType
-
Returns the enum constant of this class with the specified name.
- valueOf(String) - Static method in enum class qupath.imagej.gui.scripts.ImageJScriptRunnerController.LanguageOption
-
Returns the enum constant of this class with the specified name.
- valueOf(String) - Static method in enum class qupath.imagej.gui.scripts.ImageJScriptRunnerController.ResolutionOption
-
Returns the enum constant of this class with the specified name.
- valueOf(String) - Static method in enum class qupath.process.gui.WandToolEventHandler.WandType
-
Returns the enum constant of this class with the specified name.
- values() - Static method in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.ApplyToObjects
-
Returns an array containing the constants of this enum class, in the order they are declared.
- values() - Static method in enum class qupath.imagej.gui.scripts.ImageJScriptRunner.PathObjectType
-
Returns an array containing the constants of this enum class, in the order they are declared.
- values() - Static method in enum class qupath.imagej.gui.scripts.ImageJScriptRunnerController.LanguageOption
-
Returns an array containing the constants of this enum class, in the order they are declared.
- values() - Static method in enum class qupath.imagej.gui.scripts.ImageJScriptRunnerController.ResolutionOption
-
Returns an array containing the constants of this enum class, in the order they are declared.
- values() - Static method in enum class qupath.process.gui.WandToolEventHandler.WandType
-
Returns an array containing the constants of this enum class, in the order they are declared.
W
- WandPreferences() - Constructor for class qupath.process.gui.WandToolEventHandler.WandPreferences
- wandSensitivity - Variable in class qupath.process.gui.WandToolEventHandler.WandPreferences
- wandSensitivityProperty() - Static method in class qupath.process.gui.WandToolEventHandler
-
Property representing the wand sensitivity value, which influences how similar local intensity values must be for the wand region growing.
- wandSigma - Variable in class qupath.process.gui.WandToolEventHandler.WandPreferences
- wandSigmaPixelsProperty() - Static method in class qupath.process.gui.WandToolEventHandler
-
Property representing the Gaussian sigma value used to smooth the image when applying the wand.
- WandToolEventHandler - Class in qupath.process.gui
-
Wand tool, which acts rather like the brush - except that it expands regions (sometimes rather too eagerly?) based upon local pixel values.
- WandToolEventHandler(QuPathGUI) - Constructor for class qupath.process.gui.WandToolEventHandler
-
Constructor.
- WandToolEventHandler.WandPreferences - Class in qupath.process.gui
- WandToolEventHandler.WandType - Enum Class in qupath.process.gui
-
Enum reflecting different color images that may be used by the Wand tool.
- wandType - Variable in class qupath.process.gui.WandToolEventHandler.WandPreferences
- wandTypeProperty() - Static method in class qupath.process.gui.WandToolEventHandler
-
Property specifying whether the wand tool should be influenced by pixel values painted on image overlays.
- wandUseOverlaysProperty() - Static method in class qupath.process.gui.WandToolEventHandler
-
Property specifying whether the wand tool should be influenced by pixel values painted on image overlays.
All Classes and Interfaces|All Packages|Constant Field Values
ImageJScriptRunnerandImageJScriptRunnerControllerinstead.