de.unihalle.informatik.MiToBo.apps.datatypes.cellImages

Class SegResult_Cytoplasm

java.lang.Object

de.unihalle.informatik.MiToBo.apps.datatypes.cellImages.SegResult_Cytoplasm

All Implemented Interfaces:

SegResult_Interface

@ALDParametrizedClass
public class SegResult_Cytoplasm
extends Object
implements SegResult_Interface

Cell boundary segmentation result from single-layer image.

Objects of this class subsume cell boundaries, number of cells, average size and other figures relevant for cell image analysis.

Author:

moeller

Field Summary

Fields

Modifier and Type	Field and Description
protected double	avgsize_cells Average size of cells.
protected MTBPolygon2DSet	cellContours Set of detected cell boundaries.
protected int[]	cellSizes Array indexed with snake IDs containing region sizes of snake interiors.
protected String	image_name Name of the analyzed image.
protected MTBImageByte	labelImage Label mask.
protected int	number_cells Count of detected cells.
protected MTBImageRGB	resultCellImg Input image with snake contours overlayed (optional).
protected SegResultEnums.MeasureUnit	units Unit in which measurements are provided.

Constructor Summary

Constructors

Constructor and Description
SegResult_Cytoplasm(String imgName, MTBPolygon2DSet conts, MTBImageByte labels, int count, double avgsize) Deprecated.
SegResult_Cytoplasm(String imgName, MTBPolygon2DSet conts, MTBImageByte labels, int count, int[] sizes, double avgsize) Default constructor.

Method Summary

Modifier and Type	Method and Description
double	getCellAvgSize() Returns average size of detected cells.
int	getCellCount() Returns number of detected cells.
int[]	getCellSizes() Returns sizes of snake interiors.
MTBPolygon2DSet	getContours() Returns extracted contours.
String	getImageName() Returns the name of the processed image.
MTBImageByte	getLabelImage() Returns label mask with segmentation result.
SegResultEnums.MeasureUnit	getMeasurementUnit() Returns the unit of measurements.
MTBImageRGB	getResultCellImg() Returns (optional) result image with cell contours.
void	setResultCellImg(MTBImageRGB img) Specify (optional) result image with cell contours.

Methods inherited from class java.lang.Object

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

Field Detail

image_name

@ALDClassParameter(label="Processed image",
                   dataIOOrder=-10)
protected String image_name

Name of the analyzed image.

cellContours

@ALDClassParameter(label="Detected contours",
                   dataIOOrder=-8)
protected MTBPolygon2DSet cellContours

Set of detected cell boundaries.

labelImage

@ALDClassParameter(label="Label segmentation mask",
                   dataIOOrder=-7)
protected MTBImageByte labelImage

Label mask.

number_cells

@ALDClassParameter(label="Cell count",
                   dataIOOrder=-9)
protected int number_cells

Count of detected cells.

cellSizes

@ALDClassParameter(label="Array of cell sizes",
                   dataIOOrder=-6)
protected int[] cellSizes

Array indexed with snake IDs containing region sizes of snake interiors.

avgsize_cells

@ALDClassParameter(label="Average cell size",
                   dataIOOrder=-5)
protected double avgsize_cells

Average size of cells.

units

@ALDClassParameter(label="Measurement unit",
                   dataIOOrder=-4)
protected SegResultEnums.MeasureUnit units

Unit in which measurements are provided.

resultCellImg

@ALDClassParameter(label="Optional result overlay")
protected MTBImageRGB resultCellImg

Input image with snake contours overlayed (optional).

Constructor Detail

SegResult_Cytoplasm

@Deprecated
public SegResult_Cytoplasm(String imgName,
                                       MTBPolygon2DSet conts,
                                       MTBImageByte labels,
                                       int count,
                                       double avgsize)

Deprecated.

Default constructor.

Parameters:

imgName - Name of processed image.

conts - Cell boundary contours.

labels - Label image of segmentation result.

count - Number of detected cells.

avgsize - Average size of cells.

SegResult_Cytoplasm

public SegResult_Cytoplasm(String imgName,
                           MTBPolygon2DSet conts,
                           MTBImageByte labels,
                           int count,
                           int[] sizes,
                           double avgsize)

Default constructor.

Parameters:

imgName - Name of processed image.

conts - Cell boundary contours.

labels - Label image of segmentation result.

count - Number of detected cells.

sizes - Array with sizes of cell interiors.

avgsize - Average size of cells.

Method Detail

getImageName

public String getImageName()

Description copied from interface: SegResult_Interface

Returns the name of the processed image.

Specified by:

getImageName in interface SegResult_Interface

getContours

public MTBPolygon2DSet getContours()

Returns extracted contours.

Returns:

Set of contours.

getLabelImage

public MTBImageByte getLabelImage()

Returns label mask with segmentation result.

Returns:

Label mask of segmentation.

getCellCount

public int getCellCount()

Returns number of detected cells.

Returns:

Number of detected cells.

getCellSizes

public int[] getCellSizes()

Returns sizes of snake interiors.

Returns:

Array with cell sizes.

getCellAvgSize

public double getCellAvgSize()

Returns average size of detected cells.

Returns:

Average size of cells.

getMeasurementUnit

public SegResultEnums.MeasureUnit getMeasurementUnit()

Description copied from interface: SegResult_Interface

Returns the unit of measurements.

Specified by:

getMeasurementUnit in interface SegResult_Interface

setResultCellImg

public void setResultCellImg(MTBImageRGB img)

Specify (optional) result image with cell contours.

Parameters:

Color - overlay of result contours.

getResultCellImg

public MTBImageRGB getResultCellImg()

Returns (optional) result image with cell contours.

Returns:

Color overlay image of result contours.