Package org.anchoranalysis.plugin.image.bean.object.segment.channel

Class ConnectedComponentsFromBinarySegmentation

Object

AnchorBean<SegmentChannelIntoObjects>

InitializableBean<SegmentChannelIntoObjects,ImageInitialization>

ImageBean<SegmentChannelIntoObjects>

SegmentationBean<SegmentChannelIntoObjects>

SegmentChannelIntoObjects

ConnectedComponentsFromBinarySegmentation

public class ConnectedComponentsFromBinarySegmentation
extends SegmentChannelIntoObjects

Performs a binary-segmentation of the channel and converts its connected-components into objects

Author:

Owen Feehan

Constructor Summary

Constructors

Constructor	Description
ConnectedComponentsFromBinarySegmentation()

Method Summary

Modifier and Type	Method	Description
int	getMinNumberVoxels()
BinarySegmentation	getSegment()
ObjectCollection	segment(Channel channel, Optional<ObjectMask> objectMask, Optional<ObjectCollection> seeds)	Segments a channel to produce an object-collection.
void	setMinNumberVoxels(int minNumberVoxels)
void	setSegment(BinarySegmentation segment)

Methods inherited from class org.anchoranalysis.image.bean.segment.object.SegmentChannelIntoObjects

checkUnsupported3D, checkUnsupportedObjectMask, checkUnsupportedSeeds

Methods inherited from class org.anchoranalysis.bean.initializable.InitializableBean

getInitialization, getLogger, getPropertyInitializer, initialize, initializeRecursive, initRecursiveWithInitializer, isInitialized, onInitialization

Methods inherited from class org.anchoranalysis.bean.AnchorBean

checkMisconfigured, describeBean, describeChildren, duplicateBean, fields, findFieldsOfClass, getBeanName, getLocalPath, localise, toString

Methods inherited from class java.lang.Object

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

Constructor Details

ConnectedComponentsFromBinarySegmentation

public ConnectedComponentsFromBinarySegmentation()

Method Details

segment

public ObjectCollection segment(Channel channel,
 Optional<ObjectMask> objectMask,
 Optional<ObjectCollection> seeds)
                         throws SegmentationFailedException

Description copied from class: SegmentChannelIntoObjects

Segments a channel to produce an object-collection.

Specified by:

segment in class SegmentChannelIntoObjects

Parameters:

channel - the channel to segment

objectMask - an object-mask that can restrict which areas of the channel are considered.

seeds - seeds that can be used to determine starting-points for segmentation regions.

Returns:

a newly created collection of objects for each segment. The created objects will always exist inside the channel's extent.

Throws:

SegmentationFailedException - if anything goes wrong during the segmentation.

getSegment

public BinarySegmentation getSegment()

setSegment

public void setSegment(BinarySegmentation segment)

getMinNumberVoxels

public int getMinNumberVoxels()

setMinNumberVoxels

public void setMinNumberVoxels(int minNumberVoxels)