de.unihalle.informatik.MiToBo.apps.cytoskeleton

Class CytoskeletonFeatureExtractorLBPs

java.lang.Object

de.unihalle.informatik.Alida.operator.ALDOperator

de.unihalle.informatik.MiToBo.core.operator.MTBOperator

de.unihalle.informatik.MiToBo.apps.cytoskeleton.CytoskeletonFeatureExtractor

de.unihalle.informatik.MiToBo.apps.cytoskeleton.CytoskeletonFeatureExtractorTiles

de.unihalle.informatik.MiToBo.apps.cytoskeleton.CytoskeletonFeatureExtractorLBPs

All Implemented Interfaces:

de.unihalle.informatik.Alida.datatypes.ALDConfigurationValidator, de.unihalle.informatik.Alida.operator.events.ALDOperatorExecutionProgressEventListener, EventListener

@ALDAOperator(genericExecutionMode=SWING,
              level=STANDARD,
              allowBatchMode=false,
              shortDescription="Extracts LBP features for the ActinAnalyzer2D.")
 @ALDDerivedClass
public class CytoskeletonFeatureExtractorLBPs
extends CytoskeletonFeatureExtractorTiles

Operator for extracting LBP features for the ActinAnalyzer2D.

The operator calculates features in a multi-resolution fashion, extracting a concatenation of LBP code histograms for different radii R and numbers of neighborhood pixels P for each tile:

• R = 1.0, P = 8
• R = 1.5, P = 12
• R = 2.0, P = 16
• R = 3.0, P = 24

The resulting histogram feature vectors are of dimension 4 times histBins since each of the 4 histograms is calculated with histBins bins.

Author:

moeller

See Also:

FeatureCalculatorLBP

Nested Class Summary

Nested classes/interfaces inherited from class de.unihalle.informatik.MiToBo.apps.cytoskeleton.CytoskeletonFeatureExtractor

CytoskeletonFeatureExtractor.CellMaskFormat

Nested classes/interfaces inherited from class de.unihalle.informatik.Alida.operator.ALDOperator

de.unihalle.informatik.Alida.operator.ALDOperator.HidingMode, de.unihalle.informatik.Alida.operator.ALDOperator.HistoryConstructionMode

Field Summary

Fields

Modifier and Type	Field and Description
private int	histBins Number of histogram bins.

Fields inherited from class de.unihalle.informatik.MiToBo.apps.cytoskeleton.CytoskeletonFeatureExtractor

imageDir, imageHeight, imageWidth, iRead, maskDir, maskFormat, operatorID, outDir, tileShiftX, tileShiftY, tileSizeX, tileSizeY

Fields inherited from class de.unihalle.informatik.Alida.operator.ALDOperator

completeDAG, name, operatorExecutionEventlistenerList, portHashAccess, verbose, versionProvider

Constructor Summary

Constructors

Constructor and Description
CytoskeletonFeatureExtractorLBPs() Default constructor.

Method Summary

Modifier and Type	Method and Description
String	getDocumentation()
protected Vector<FeatureCalculator>	getFeatureOps() Method to request operators for feature extraction to be applied.
void	setHistBins(int n) Specify number of histogram bins.

Methods inherited from class de.unihalle.informatik.MiToBo.apps.cytoskeleton.CytoskeletonFeatureExtractorTiles

calculateFeatures

Methods inherited from class de.unihalle.informatik.MiToBo.apps.cytoskeleton.CytoskeletonFeatureExtractor

operate, readInputImageMaxProjectChannel, readMaskImage, setCytoskeletonChannel, setImageDir, setMaskDir, setMaskFormat, setOutputDir, setTileShiftX, setTileShiftY, setTileSizeX, setTileSizeY

Methods inherited from class de.unihalle.informatik.MiToBo.core.operator.MTBOperator

readResolve

Methods inherited from class de.unihalle.informatik.Alida.operator.ALDOperator

addOperatorExecutionProgressEventListener, addParameter, addParameter, addParameterUnconditioned, fieldContained, fireOperatorExecutionProgressEvent, getALDPortHashAccessKey, getConstructionMode, getHidingMode, getInactiveParameterNames, getInInoutNames, getInInoutNames, getInNames, getInOutNames, getMissingRequiredInputs, getName, getNumParameters, getOutInoutNames, getOutNames, getParameter, getParameterDescriptor, getParameterDescriptorUnconditioned, getParameterNames, getParameterUnconditioned, getSupplementalNames, getVerbose, getVersion, handleOperatorExecutionProgressEvent, hasInOutParameters, hasParameter, isAnnotatedParameter, isConfigured, print, print, print, printInterface, printInterface, readHistory, reinitializeParameterDescriptors, removeOperatorExecutionProgressEventListener, removeParameter, runOp, runOp, runOp, setConstructionMode, setConstructionMode, setConstructionMode, setHidingMode, setName, setParameter, setParameterUnconditioned, setVerbose, toStringVerbose, unconfiguredItems, validate, validateCustom, validateGeneric, writeHistory, writeHistory, writeHistory

Methods inherited from class java.lang.Object

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

Field Detail

histBins

@Parameter(label="Number of Histograms Bins",
           required=true,
           direction=IN,
           supplemental=false,
           description="Number of Histogram Bins.",
           dataIOOrder=5)
private int histBins

Number of histogram bins.

Constructor Detail

CytoskeletonFeatureExtractorLBPs

public CytoskeletonFeatureExtractorLBPs()
                                 throws de.unihalle.informatik.Alida.exceptions.ALDOperatorException

Default constructor.

Throws:

de.unihalle.informatik.Alida.exceptions.ALDOperatorException - Thrown in case of failure.

Method Detail

setHistBins

public void setHistBins(int n)

Specify number of histogram bins.

Parameters:

n - Number of bins to use.

getFeatureOps

protected Vector<FeatureCalculator> getFeatureOps()
                                           throws de.unihalle.informatik.Alida.exceptions.ALDOperatorException

Description copied from class: CytoskeletonFeatureExtractorTiles

Method to request operators for feature extraction to be applied.

Specified by:

getFeatureOps in class CytoskeletonFeatureExtractorTiles

Returns:

List of operators to apply.

Throws:

de.unihalle.informatik.Alida.exceptions.ALDOperatorException - Thrown in case of failure.

getDocumentation

public String getDocumentation()

Overrides:

getDocumentation in class de.unihalle.informatik.Alida.operator.ALDOperator