Package org.anchoranalysis.image.bean.displayer

Class IntensityQuantiles

Object

org.anchoranalysis.bean.AnchorBean<StackDisplayer>

org.anchoranalysis.image.bean.displayer.StackDisplayer

org.anchoranalysis.image.bean.displayer.IntensityQuantiles

public class IntensityQuantiles
extends StackDisplayer

Implementation of StackDisplayer that converts to unsigned-8bit by taking the upper and lower quantiles of the intensity range.

Within the two ranges, values are mapped linearly onto the full unsigned 8-bit range.

Author:

Owen Feehan

Constructor Summary

Constructors

Constructor	Description
IntensityQuantiles()

Method Summary

Modifier and Type	Method	Description
void	checkMisconfigured(BeanInstanceMap defaultInstances)
protected ChannelConverterAttached<Channel,org.anchoranalysis.image.voxel.buffer.primitive.UnsignedByteBuffer>	createConverterFor(org.anchoranalysis.image.voxel.datatype.VoxelDataType dataType)	Determines what kind of converter to use for a particular channel, to map it to an unsigned 8-bit channel.
double	getQuantileLower()	The lower quantile to use as the lower-limit for the intensity range to display.
double	getQuantileUpper()	The lower quantile to use as the upper-limit for the intensity range to display.
void	setQuantileLower(double quantileLower)	The lower quantile to use as the lower-limit for the intensity range to display.
void	setQuantileUpper(double quantileUpper)	The lower quantile to use as the upper-limit for the intensity range to display.

Methods inherited from class org.anchoranalysis.image.bean.displayer.StackDisplayer

deriveFrom, deriveFrom, deriveFrom

Methods inherited from class org.anchoranalysis.bean.AnchorBean

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

IntensityQuantiles

public IntensityQuantiles()

Method Details

checkMisconfigured

public void checkMisconfigured(BeanInstanceMap defaultInstances) throws BeanMisconfiguredException

Overrides:

checkMisconfigured in class AnchorBean<StackDisplayer>

Throws:

BeanMisconfiguredException

createConverterFor

protected ChannelConverterAttached<Channel,org.anchoranalysis.image.voxel.buffer.primitive.UnsignedByteBuffer> createConverterFor(org.anchoranalysis.image.voxel.datatype.VoxelDataType dataType)

Description copied from class: StackDisplayer

Determines what kind of converter to use for a particular channel, to map it to an unsigned 8-bit channel.

Specified by:

createConverterFor in class StackDisplayer

Parameters:

dataType - the voxel-data type that must be converted to unsigned 8-bit.

Returns:

a newly created ChannelConverterAttached that can convert from channels with voxel-type dataType to unsigned 8-bit.

getQuantileLower

public double getQuantileLower()

The lower quantile to use as the lower-limit for the intensity range to display.

setQuantileLower

public void setQuantileLower(double quantileLower)

The lower quantile to use as the lower-limit for the intensity range to display.

getQuantileUpper

public double getQuantileUpper()

The lower quantile to use as the upper-limit for the intensity range to display.

setQuantileUpper

public void setQuantileUpper(double quantileUpper)

The lower quantile to use as the upper-limit for the intensity range to display.