de.unihalle.informatik.MiToBo.apps.singleCellTracking2D
Class ShapeAnalyzer
java.lang.Object
de.unihalle.informatik.MiToBo.apps.singleCellTracking2D.ReportGenerator
de.unihalle.informatik.MiToBo.apps.singleCellTracking2D.ShapeAnalyzer
public class ShapeAnalyzer
- extends ReportGenerator
Method Summary |
private java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> |
getAreaFractions(java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> areas)
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private java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> |
getAreas()
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private java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> |
getAvgWidths(java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> areas,
java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> lengths)
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private java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> |
getCircularities()
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private java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> |
getEccentricities()
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private java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> |
getLengths()
calculates the lengths of the major axes of the best fitting ellipses for each object
assumes the pixels to be square, i.e. deltaX == deltaY |
private java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> |
getOverlaps()
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private java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> |
getPerimeters()
calculates perimeters of the objects
assumes the pixels to be square, i.e. deltaX == deltaY |
java.lang.String |
makeReport()
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Methods inherited from class de.unihalle.informatik.MiToBo.apps.singleCellTracking2D.ReportGenerator |
getAverageMean, getAverageStdDev, getObjectsMeans, getObjectsStdDevs, getSettings, hashtableToString, hashtableToString, numberToString, pointHashtableToString, pointHashtableToStringX, pointHashtableToStringY, pointVectorToString, pointVectorToStringX, pointVectorToStringY, setDeltaT, setDeltaX, setDeltaY, setMinTrackLength, setUnitAngle, setUnitT, setUnitXY, trim, vectorToString, vectorToString |
Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
labelImg
private final transient MTBImage labelImg
sizeT
private final int sizeT
sizeX
private final int sizeX
sizeY
private final int sizeY
ShapeAnalyzer
public ShapeAnalyzer(MTBImage labelImg)
- constructor
- Parameters:
labelImg
- input label image
getAreaFractions
private java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> getAreaFractions(java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> areas)
- Parameters:
areas
- areas of the objects in the distinct frames
- Returns:
- key: areas fractions of the objects from one frame to the next
key: object-id, value: list of areas fractions
getAreas
private java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> getAreas()
- Returns:
- key: areas of the objects in the distinct frames
key: object-id, value: list of areas
getAvgWidths
private java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> getAvgWidths(java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> areas,
java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> lengths)
- Parameters:
areas
- lengths
-
- Returns:
- average width of each object in every frame
key: object-id, value: list of widths
getCircularities
private java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> getCircularities()
- Returns:
- circularity of each object in every frame
key: object-id, value: list of circularities
getEccentricities
private java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> getEccentricities()
- Returns:
- eccentricity of each object in every frame
key: object-id, value: list of eccentricities
getLengths
private java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> getLengths()
- calculates the lengths of the major axes of the best fitting ellipses for each object
assumes the pixels to be square, i.e. deltaX == deltaY
- Returns:
- length of major axis of each object in every frame
key: object-id, value: list of lengths
getOverlaps
private java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> getOverlaps()
- Returns:
- key: overlap of the object pixels in the distinct frames
key: object-id, value: list of overlaps
getPerimeters
private java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Double>> getPerimeters()
- calculates perimeters of the objects
assumes the pixels to be square, i.e. deltaX == deltaY
- Returns:
- perimeter of each object in every frame
key: object-id, value: list of perimeters
makeReport
public java.lang.String makeReport()
- Specified by:
makeReport
in class ReportGenerator
- Returns:
- report