Package qupath.lib.lazy.objects

Class PathObjectLazyValues

java.lang.Object

qupath.lib.lazy.objects.PathObjectLazyValues

public class PathObjectLazyValues
extends Object

Helper class to create or access different LazyValue instances. These can be used to extract (possibly dynamic) measurements from objects.

Field Summary

Fields

Modifier and Type	Field	Description
static final LazyStringValue<PathObject>	CLASSIFICATION	Measurement to extract a string representation of an object's classification.
static final LazyStringValue<PathObject>	OBJECT_ID	Measurement to extract the unique ID of an object, as a string.
static final LazyStringValue<PathObject>	OBJECT_NAME	Measurement to extract the name of an object.
static final LazyStringValue<PathObject>	OBJECT_TYPE	Measurement to extract the type of an object (e.g.
static final LazyStringValue<PathObject>	PARENT_DISPLAYED_NAME	Measurement to extract the displayed name of an object's parent.
static LazyNumericValue<PathObject>	ROI_NUM_POINTS
static LazyNumericValue<PathObject>	ROI_TIMEPOINT
static final LazyStringValue<PathObject>	ROI_TYPE	Measurement to extract the name of a ROI type (e.g.
static LazyNumericValue<PathObject>	ROI_Z_SLICE
static LazyBooleanValue<PathObject>	TMA_CORE_MISSING
static final LazyStringValue<PathObject>	TMA_CORE_NAME	Measurement to extract the name of a TMA core, or of the TMA core that is an ancestor of the provided object.

Constructor Summary

Constructors

Constructor	Description
PathObjectLazyValues()

Method Summary

Modifier and Type	Method	Description
static LazyNumericValue<PathObject>	createAllredIntensityMeasurement(ImageData<?> imageData, Supplier<Double> allredMinPercentage, PathClass... pathClasses)
static LazyNumericValue<PathObject>	createAllredMeasurement(ImageData<?> imageData, Supplier<Double> allredMinPercentage, PathClass... pathClasses)
static LazyNumericValue<PathObject>	createAllredProportionMeasurement(ImageData<?> imageData, Supplier<Double> allredMinPercentage, PathClass... pathClasses)
static LazyNumericValue<PathObject>	createBaseClassCountsMeasurement(ImageData<?> imageData, PathClass pathClass)
static LazyNumericValue<PathObject>	createDetectionClassDensityMeasurement(ImageData<?> imageData, PathClass pathClass)
static LazyNumericValue<PathObject>	createDetectionCountMeasurement(ImageData<?> imageData)	Create a measurement that counts the number of detections within an object's ROI.
static LazyNumericValue<PathObject>	createExactClassCountsMeasurement(ImageData<?> imageData, PathClass pathClass)
static LazyNumericValue<PathObject>	createHScoreMeasurement(ImageData<?> imageData, PathClass... pathClasses)
static LazyStringValue<PathObject>	createImageNameMeasurement(ImageData<?> imageData)	Create a measurement that extracts the current name from an ImageData.
static LazyNumericValue<PathObject>	createLivePixelClassificationMeasurement(PixelClassificationMeasurementManager manager, String name)	Create a measurement for displaying live measurements from a pixel classifier.
static LazyNumericValue<PathObject>	createMeasurementListMeasurement(String name)
static LazyStringValue<PathObject>	createMetadataMeasurement(String name)
static LazyNumericValue<PathObject>	createPositivePercentageMeasurement(ImageData<?> imageData, PathClass... pathClasses)
static LazyNumericValue<PathObject>	createROIAreaMeasurement(ImageData<?> imageData)	Create a measurement that extracts the area of an object's ROI.
static LazyNumericValue<PathObject>	createROICentroidX(ImageData<?> imageData)	Create a measurement that extracts the x-coordinate of the centroid of an object's ROI.
static LazyNumericValue<PathObject>	createROICentroidY(ImageData<?> imageData)	Create a measurement that extracts the y-coordinate of the centroid of an object's ROI.
static LazyNumericValue<PathObject>	createROILengthMeasurement(ImageData<?> imageData)	Create a measurement that extracts the length of a line ROI.
static LazyNumericValue<PathObject>	createROIPerimeterMeasurement(ImageData<?> imageData)	Create a measurement that extracts the perimeter of an object's ROI.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Details

CLASSIFICATION

public static final LazyStringValue<PathObject> CLASSIFICATION

Measurement to extract a string representation of an object's classification.

PARENT_DISPLAYED_NAME

public static final LazyStringValue<PathObject> PARENT_DISPLAYED_NAME

Measurement to extract the displayed name of an object's parent. The displayed name is derived from PathObject.getDisplayedName() for the parent.

OBJECT_TYPE

public static final LazyStringValue<PathObject> OBJECT_TYPE

Measurement to extract the type of an object (e.g. Annotation, Detection, Cell).

OBJECT_ID

public static final LazyStringValue<PathObject> OBJECT_ID

Measurement to extract the unique ID of an object, as a string.

OBJECT_NAME

public static final LazyStringValue<PathObject> OBJECT_NAME

Measurement to extract the name of an object.

TMA_CORE_NAME

public static final LazyStringValue<PathObject> TMA_CORE_NAME

Measurement to extract the name of a TMA core, or of the TMA core that is an ancestor of the provided object. This is useful to assign objects to specific cores.

ROI_TYPE

public static final LazyStringValue<PathObject> ROI_TYPE

Measurement to extract the name of a ROI type (e.g. Polygon, Rectangle).

TMA_CORE_MISSING

public static LazyBooleanValue<PathObject> TMA_CORE_MISSING

ROI_Z_SLICE

public static LazyNumericValue<PathObject> ROI_Z_SLICE

ROI_TIMEPOINT

public static LazyNumericValue<PathObject> ROI_TIMEPOINT

ROI_NUM_POINTS

public static LazyNumericValue<PathObject> ROI_NUM_POINTS

Constructor Details

PathObjectLazyValues

public PathObjectLazyValues()

Method Details

createImageNameMeasurement

public static LazyStringValue<PathObject> createImageNameMeasurement(ImageData<?> imageData)

Create a measurement that extracts the current name from an ImageData.

Parameters:

imageData - the image data from which the name should be read

Returns:

createROICentroidX

public static LazyNumericValue<PathObject> createROICentroidX(ImageData<?> imageData)

Create a measurement that extracts the x-coordinate of the centroid of an object's ROI.

Parameters:

imageData - the image data used for calibration

Returns:

createROICentroidY

public static LazyNumericValue<PathObject> createROICentroidY(ImageData<?> imageData)

Create a measurement that extracts the y-coordinate of the centroid of an object's ROI.

Parameters:

imageData - the image data used for calibration

Returns:

createROIAreaMeasurement

public static LazyNumericValue<PathObject> createROIAreaMeasurement(ImageData<?> imageData)

Create a measurement that extracts the area of an object's ROI.

Parameters:

imageData - the image data used for calibration

Returns:

createROIPerimeterMeasurement

public static LazyNumericValue<PathObject> createROIPerimeterMeasurement(ImageData<?> imageData)

Create a measurement that extracts the perimeter of an object's ROI.

Parameters:

imageData - the image data used for calibration

Returns:

createROILengthMeasurement

public static LazyNumericValue<PathObject> createROILengthMeasurement(ImageData<?> imageData)

Create a measurement that extracts the length of a line ROI.

Parameters:

imageData - the image data used for calibration

Returns:

createDetectionCountMeasurement

public static LazyNumericValue<PathObject> createDetectionCountMeasurement(ImageData<?> imageData)

Create a measurement that counts the number of detections within an object's ROI.

Parameters:

imageData - the image data containing the object hierarchy

Returns:

createLivePixelClassificationMeasurement

public static LazyNumericValue<PathObject> createLivePixelClassificationMeasurement(PixelClassificationMeasurementManager manager,
 String name)

Create a measurement for displaying live measurements from a pixel classifier.

Parameters:

manager -

name -

Returns:

createMetadataMeasurement

public static LazyStringValue<PathObject> createMetadataMeasurement(String name)

createMeasurementListMeasurement

public static LazyNumericValue<PathObject> createMeasurementListMeasurement(String name)

createHScoreMeasurement

public static LazyNumericValue<PathObject> createHScoreMeasurement(ImageData<?> imageData,
 PathClass... pathClasses)

createPositivePercentageMeasurement

public static LazyNumericValue<PathObject> createPositivePercentageMeasurement(ImageData<?> imageData,
 PathClass... pathClasses)

createDetectionClassDensityMeasurement

public static LazyNumericValue<PathObject> createDetectionClassDensityMeasurement(ImageData<?> imageData,
 PathClass pathClass)

createBaseClassCountsMeasurement

public static LazyNumericValue<PathObject> createBaseClassCountsMeasurement(ImageData<?> imageData,
 PathClass pathClass)

createExactClassCountsMeasurement

public static LazyNumericValue<PathObject> createExactClassCountsMeasurement(ImageData<?> imageData,
 PathClass pathClass)

createAllredIntensityMeasurement

public static LazyNumericValue<PathObject> createAllredIntensityMeasurement(ImageData<?> imageData,
 Supplier<Double> allredMinPercentage,
 PathClass... pathClasses)

createAllredProportionMeasurement

public static LazyNumericValue<PathObject> createAllredProportionMeasurement(ImageData<?> imageData,
 Supplier<Double> allredMinPercentage,
 PathClass... pathClasses)

createAllredMeasurement

public static LazyNumericValue<PathObject> createAllredMeasurement(ImageData<?> imageData,
 Supplier<Double> allredMinPercentage,
 PathClass... pathClasses)