Package qupath.lib.plugins.objects

Class FindConvexHullDetectionsPlugin<T>

java.lang.Object
qupath.lib.plugins.AbstractPlugin<T>
qupath.lib.plugins.AbstractInteractivePlugin<T>
qupath.lib.plugins.objects.FindConvexHullDetectionsPlugin<T>
Type Parameters:
T -
All Implemented Interfaces:
PathInteractivePlugin<T>, PathPlugin<T>
public class FindConvexHullDetectionsPlugin<T> extends AbstractInteractivePlugin<T>
Plugin to identify/remove detections from the convex hull of all detections.

Currently works only for TMA cores.

Purpose is to remove edge detections, where the tissue quality tends to be lower.

Author:
Pete Bankhead

  • Constructor Details

    • FindConvexHullDetectionsPlugin

      public FindConvexHullDetectionsPlugin()

  • Method Details

    • getName

      public String getName()
      Description copied from interface: PathPlugin
      Get the name of the plugin for display.

      This should be descriptive and, above all, short - as it may be used for menu item names & dialog box titles.

      Returns:

    • getDescription

      public String getDescription()
      Description copied from interface: PathPlugin
      Get a brief description of the plugin's purpose & operation.

      If no description is provided, this may return null.

      Returns:

    • getLastResultsDescription

      public String getLastResultsDescription()
      Description copied from interface: PathPlugin
      (Optional) short one-line description of the results, e.g. to say how many objects detected. GUIs may choose to display this on a label during interactive processing.
      Returns:

    • getParentObjects

      protected Collection<? extends PathObject> getParentObjects(ImageData<T> imageData)
      Description copied from class: AbstractPlugin
      Get a collection of objects to process, based on the contents of the PluginRunner. This could (for example) return the selected object, the root object, all detection objects... depending upon what the plugin does. Each object this returns will be passed to addRunnableTasks to create a task to run. In practice, this method can be overridden to return anything/nothing if getTasks is overridden instead.
      Specified by:
      getParentObjects in class AbstractPlugin<T>
      Parameters:
      imageData -
      Returns:

    • getSupportedParentObjectClasses

      public Collection<Class<? extends PathObject>> getSupportedParentObjectClasses()
      Description copied from interface: PathInteractivePlugin
      Get a collection of possible parent objects that the plugin could have. This may be used, for example, to specified that analysis may be applied to any/all TMA cores or annotations. If no parent objects are required, PathRootObject.class should be returned in the list.
      Returns:

    • getDefaultParameterList

      public ParameterList getDefaultParameterList(ImageData<T> imageData)
      Description copied from class: AbstractInteractivePlugin
      This should return a default ParameterList containing any information that is needed to repeat the task exactly.
      Specified by:
      getDefaultParameterList in interface PathInteractivePlugin<T>
      Specified by:
      getDefaultParameterList in class AbstractInteractivePlugin<T>
      Parameters:
      imageData -
      Returns:

    • runPlugin

      public boolean runPlugin(TaskRunner taskRunner, ImageData<T> imageData, String arg)
      Description copied from interface: PathPlugin
      Run the plugin. A PluginRunner may be provided that this plugin can use to update the user on its progress.

      Note: This command should block until it has completed processing.

      Specified by:
      runPlugin in interface PathPlugin<T>
      Overrides:
      runPlugin in class AbstractPlugin<T>
      Parameters:
      taskRunner -
      arg -
      Returns:

    • addRunnableTasks

      protected void addRunnableTasks(ImageData<T> imageData, PathObject parentObject, List<Runnable> tasks)
      Description copied from class: AbstractPlugin
      For a specified parent object, generate a task to run. In practice, this method can be overridden to return anything/nothing if getTasks is overridden instead.
      Specified by:
      addRunnableTasks in class AbstractPlugin<T>
      Parameters:
      imageData -
      parentObject -
      tasks -