Package qupath.ext.braian

Class OverlappingDetections

java.lang.Object

qupath.ext.braian.AbstractDetections

qupath.ext.braian.OverlappingDetections

public class OverlappingDetections
extends AbstractDetections

This class allows to compute and manage double/triple/multiple positive detections. It does so by leveraging AbstractDetections interface

Field Summary

Fields

Modifier and Type	Field	Description
static final String	OVERLAP_DELIMITER

Constructor Summary

Constructors

Constructor	Description
OverlappingDetections(AbstractDetections control, Collection<AbstractDetections> others, boolean compute, qupath.lib.objects.hierarchy.PathObjectHierarchy hierarchy)	Creates an instance of overlapping detections
OverlappingDetections(AbstractDetections control, Collection<AbstractDetections> others, qupath.lib.objects.hierarchy.PathObjectHierarchy hierarchy)	Creates an instance based on pre-computed overlapping detections

Method Summary

Modifier and Type	Method	Description
static List<String>	createAllOverlappingClassNames(List<String> primitiveClasses)	Creates all the names of the possible overlaps between the given PathClasses names
String	getContainersName()

Methods inherited from class qupath.ext.braian.AbstractDetections

applyClassifiers, createContainer, equals, fireUpdate, getChildrenDetections, getContainers, getContainersPathClass, getDetectionsInside, getDetectionsInside, getDetectionsPathClasses, getDiscardedDetectionsPathClass, getHierarchy, getId, getOverlappingObjectIfPresent, isChannelDetection, isCompatibleClassifier, isCompatibleWith, isContainer, isEmpty, toStream

Methods inherited from class java.lang.Object

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

Field Details

OVERLAP_DELIMITER

public static final String OVERLAP_DELIMITER

See Also:

• Constant Field Values

Constructor Details

OverlappingDetections

public OverlappingDetections(AbstractDetections control,
 Collection<AbstractDetections> others,
 boolean compute,
 qupath.lib.objects.hierarchy.PathObjectHierarchy hierarchy)
                      throws NoCellContainersFoundException

Creates an instance of overlapping detections

Parameters:

control - the detections used to check whether the other detections are overlapping between them and the control

others - the other detections

compute - if true, it will delete any previous overlap and compute the overlap between detections. If false, it will try to retrieve pre-computed ovarlappings

hierarchy - where to find/compute the overlapping detections

Throws:

NoCellContainersFoundException - if no pre-computed overlappings were found in the given hierarchy

OverlappingDetections

public OverlappingDetections(AbstractDetections control,
 Collection<AbstractDetections> others,
 qupath.lib.objects.hierarchy.PathObjectHierarchy hierarchy)
                      throws NoCellContainersFoundException

Creates an instance based on pre-computed overlapping detections

Parameters:

control - the detections used to check whether the other detections are overlapping between them and the control

others - the other detections

hierarchy - where to find the overlapping detections

Throws:

NoCellContainersFoundException - if no pre-computed overlappings were found in the given hierarchy

Method Details

createAllOverlappingClassNames

public static List<String> createAllOverlappingClassNames(List<String> primitiveClasses)

Creates all the names of the possible overlaps between the given PathClasses names

Parameters:

primitiveClasses - a list of PathClasses names

Returns:

a list combinations of the given primitiveClasses, delimited by OVERLAP_DELIMITER

getContainersName

public String getContainersName()

Specified by:

getContainersName in class AbstractDetections

Returns:

the name used by the containers of detections of the instance kind