Package org.anchoranalysis.plugin.image.feature.bean.object.single.intensity

Class Intensity

Object

AnchorBean<Feature<FeatureInputSingleObject>>

InitializableBean<Feature<FeatureInputSingleObject>,FeatureInitialization>

Feature<FeatureInputSingleObject>

FeatureSingleObject

FeatureEnergyChannel

Intensity

public class Intensity
extends FeatureEnergyChannel

Calculates a statistic from the intensity values covered by a single object-mask in a channel.

Specifically, a histogram of intensity-values is constructed for the region covered by the object in one specific channnel in the energy-stack (specified by energyIndex).

Then a customizable FeatureHistogram (specified by item) extracts a statistic from the histogram. By default, the mean is calculated.

Author:

Owen Feehan

Constructor Summary

Constructors

Constructor	Description
Intensity()

Method Summary

Modifier and Type	Method	Description
protected double	calculateForChannel(FeatureCalculationInput<FeatureInputSingleObject> input, Channel channel)	Calculates the feature value for a specific channel in the energy stack.
Feature<FeatureInputHistogram>	getItem()	Feature to apply to the histogram
boolean	isExcludeZero()	Iff true, zero-valued voxels are excluded from the histogram
void	setExcludeZero(boolean excludeZero)	Iff true, zero-valued voxels are excluded from the histogram
void	setItem(Feature<FeatureInputHistogram> item)	Feature to apply to the histogram

Methods inherited from class org.anchoranalysis.plugin.image.feature.bean.object.single.intensity.FeatureEnergyChannel

calculate, getEnergyIndex, setEnergyIndex

Methods inherited from class org.anchoranalysis.image.feature.bean.object.single.FeatureSingleObject

inputType

Methods inherited from class org.anchoranalysis.feature.bean.Feature

assignTo, beforeCalc, calculateCheckInitialized, castAs, createListChildFeatures, describeBean, describeParameters, descriptionLong, duplicateChangeName, getCustomName, getFriendlyName, onInitialization, setCustomName, toString

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

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

Methods inherited from class org.anchoranalysis.bean.AnchorBean

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

Methods inherited from class java.lang.Object

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

Constructor Details

Intensity

public Intensity()

Method Details

calculateForChannel

protected double calculateForChannel(FeatureCalculationInput<FeatureInputSingleObject> input,
 Channel channel)
                              throws FeatureCalculationException

Description copied from class: FeatureEnergyChannel

Calculates the feature value for a specific channel in the energy stack.

Specified by:

calculateForChannel in class FeatureEnergyChannel

Parameters:

input - the FeatureCalculationInput containing the FeatureInputSingleObject

channel - the Channel from the energy stack to calculate the feature on

Returns:

the calculated feature value

Throws:

FeatureCalculationException - if the calculation fails

getItem

public Feature<FeatureInputHistogram> getItem()

Feature to apply to the histogram

setItem

public void setItem(Feature<FeatureInputHistogram> item)

Feature to apply to the histogram

isExcludeZero

public boolean isExcludeZero()

Iff true, zero-valued voxels are excluded from the histogram

setExcludeZero

public void setExcludeZero(boolean excludeZero)

Iff true, zero-valued voxels are excluded from the histogram