Package qupathj

Class QuPath_Send_Overlay_to_QuPath

java.lang.Object

qupathj.QuPath_Send_Overlay_to_QuPath

All Implemented Interfaces:

PlugIn

public class QuPath_Send_Overlay_to_QuPath
extends Object
implements PlugIn

ImageJ plugin for sending back all the ROIs on an ImageJ overlay to QuPath. Optionally measure the ROIs first, and include the measurements as features.

Constructor Summary

Constructors

Constructor	Description
QuPath_Send_Overlay_to_QuPath()

Method Summary

Modifier and Type	Method	Description
static List<PathObject>	createObjectsFromROIs(ImagePlus imp, Collection<? extends Roi> rois, double downsample, boolean asDetection, boolean includeMeasurements, ImagePlane plane)	Turn an array of ImageJ ROIs into a list of QuPath PathObjects, optionally adding measurements as well.
static List<PathObject>	createObjectsFromROIs(ImagePlus imp, Collection<? extends Roi> rois, double downsample, Function<ROI,PathObject> creator, boolean includeMeasurements, ImagePlane plane)	Turn an array of ImageJ ROIs into a list of QuPath PathObjects, optionally adding measurements as well.
void	run(String arg)

Methods inherited from class java.lang.Object

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

Constructor Details

QuPath_Send_Overlay_to_QuPath

public QuPath_Send_Overlay_to_QuPath()

Method Details

run

public void run(String arg)

Specified by:

run in interface PlugIn

createObjectsFromROIs

public static List<PathObject> createObjectsFromROIs(ImagePlus imp,
 Collection<? extends Roi> rois,
 double downsample,
 boolean asDetection,
 boolean includeMeasurements,
 ImagePlane plane)

Turn an array of ImageJ ROIs into a list of QuPath PathObjects, optionally adding measurements as well.

Parameters:

imp -

rois -

downsample -

asDetection -

includeMeasurements -

plane -

Returns:

Since:

v0.4.0

createObjectsFromROIs

public static List<PathObject> createObjectsFromROIs(ImagePlus imp,
 Collection<? extends Roi> rois,
 double downsample,
 Function<ROI,PathObject> creator,
 boolean includeMeasurements,
 ImagePlane plane)

Turn an array of ImageJ ROIs into a list of QuPath PathObjects, optionally adding measurements as well.

Parameters:

imp - the image to use for measurements

rois - the ROIs to convert

downsample - the downsample factor of the image

creator - the function to create QuPath objects from ROIs

includeMeasurements - request to include measurements for the objects that are created

plane - the image plane for the created objects

Returns:

Since:

v0.6.0