edu.stanford.rsl.apps.gui.blobdetection

Class AutomaticMarkerDetectionWorker

java.lang.Object

edu.stanford.rsl.apps.gui.blobdetection.MarkerDetectionWorker

edu.stanford.rsl.apps.gui.blobdetection.AutomaticMarkerDetectionWorker

public class AutomaticMarkerDetectionWorker
extends MarkerDetectionWorker

Constructor Summary

Constructors

Constructor and Description
AutomaticMarkerDetectionWorker()

Method Summary

Methods

Modifier and Type	Method and Description
void	blankOutMarkerPositions(Grid3D frst)
void	configure()
static Grid3D	doParallelStuff(Grid3D inputStack, ImageFilteringTool[] filters)
static void	main(java.lang.String[] args)
void	setParameters(double binThresh, double circularity, double lowGradThresh, double distance, java.lang.String radii, boolean refinementActive, int nrOfBeads)
static void	thresholdStack(ij.ImagePlus ip, double offset) Threshold stack and create binary masks

Methods inherited from class edu.stanford.rsl.apps.gui.blobdetection.MarkerDetectionWorker

getFilename, getMeasuredTwoDPoints, getMergedTwoDPositions, getRadii, getReferenceThreeDPoints, getReferenceTwoDPoints, run, setFilename, setImage, setParameters

Methods inherited from class java.lang.Object

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

Constructor Detail

AutomaticMarkerDetectionWorker

public AutomaticMarkerDetectionWorker()

Method Detail

configure

public void configure()

Overrides:

configure in class MarkerDetectionWorker

blankOutMarkerPositions

public void blankOutMarkerPositions(Grid3D frst)

thresholdStack

public static void thresholdStack(ij.ImagePlus ip,
                  double offset)

Threshold stack and create binary masks

Parameters:

ip - the ImagePlus

offset - the threshold

doParallelStuff

public static Grid3D doParallelStuff(Grid3D inputStack,
                     ImageFilteringTool[] filters)

setParameters

public void setParameters(double binThresh,
                 double circularity,
                 double lowGradThresh,
                 double distance,
                 java.lang.String radii,
                 boolean refinementActive,
                 int nrOfBeads)

main

public static void main(java.lang.String[] args)