Package | Description |
---|---|
de.unihalle.informatik.MiToBo.apps.cells2D | |
de.unihalle.informatik.MiToBo.apps.cytoplasm2D | |
de.unihalle.informatik.MiToBo.apps.datatypes.cellImages | |
de.unihalle.informatik.MiToBo.apps.neurites2D | |
de.unihalle.informatik.MiToBo.apps.nuclei2D | |
de.unihalle.informatik.MiToBo.core.datatypes |
Provides basic datatypes for MiToBo.
|
de.unihalle.informatik.MiToBo.core.imageJ |
Provides convenience classes for interaction with ImageJ system.
|
de.unihalle.informatik.MiToBo.segmentation.levelset.PDE.solver | |
de.unihalle.informatik.MiToBo.segmentation.snakes.datatypes |
Provides basic datatypes for MiToBo explicit active contours (snakes).
|
de.unihalle.informatik.MiToBo.segmentation.snakes.optimize |
Provides classes for performing snake-based segmentation on images.
|
de.unihalle.informatik.MiToBo.visualization.drawing |
Provides operators to visualize data types.
|
Modifier and Type | Field and Description |
---|---|
private MTBPolygon2DSet |
Mica2D.nucleiContours
(Optional) initial snake contours for nuclei.
|
Modifier and Type | Method and Description |
---|---|
void |
Mica2D.setInitialSnakes(MTBPolygon2DSet f)
Specify set of initial snakes.
|
Modifier and Type | Field and Description |
---|---|
protected MTBPolygon2DSet |
CytoplasmAnalyzer2D.currentSnakes
Current set of snakes.
|
protected MTBPolygon2DSet |
CytoplasmAnalyzer2D.initialSnakes
Initial snakes for cells, e.g. nuclei contours.
|
protected MTBPolygon2DSet |
CytoplasmAnalyzer2D.resultSnakes |
Modifier and Type | Method and Description |
---|---|
void |
CytoplasmAnalyzer2D.setInitialSnakes(MTBPolygon2DSet snakes)
Specify initial snakes.
|
Constructor and Description |
---|
CytoplasmAnalyzer2D(MTBImage img,
MTBPolygon2DSet initS,
SnakeOptimizerCoupled snakeObj,
CytoplasmAnalyzer2D.DetectMode m,
int _maxLevels)
Default constructor.
|
Modifier and Type | Field and Description |
---|---|
protected MTBPolygon2DSet |
SegResult_Cytoplasm.cellContours
Set of detected cell boundaries.
|
Modifier and Type | Method and Description |
---|---|
MTBPolygon2DSet |
SegResult_Cytoplasm.getContours()
Returns extracted contours.
|
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.
|
Modifier and Type | Method and Description |
---|---|
private MTBPolygon2DSet |
NeuriteDetector2DAlgos.optimizeSnakes(MTBPolygon2DSet initSnakeSet)
Optimization of the snakes (main snake and inner snakes) with its specified
parameters and energies.
|
Modifier and Type | Method and Description |
---|---|
private MTBRegion2DSet |
NeuriteDetector2DAlgos.getSnakeRegion(MTBPolygon2DSet theSnakes)
Get the region which is included in the snake contour.
|
private MTBPolygon2DSet |
NeuriteDetector2DAlgos.optimizeSnakes(MTBPolygon2DSet initSnakeSet)
Optimization of the snakes (main snake and inner snakes) with its specified
parameters and energies.
|
Modifier and Type | Field and Description |
---|---|
private MTBPolygon2DSet |
NucleusSeparator2DPeakSearch_RegionSeparator.snakePrimerEllipse
Set of elliptical snake polygons.
|
private MTBPolygon2DSet |
NucleusSeparator2DPeakSearch_RegionSeparator.snakePrimerVoronoi
Set of snake polygons based on Voronoi tesselation.
|
private MTBPolygon2DSet |
NucleusSeparator2DPeakSearch.snakes
Set of resulting contours.
|
Modifier and Type | Method and Description |
---|---|
MTBPolygon2DSet |
NucleusSeparator2DPeakSearch_RegionSeparator.getEllipsoidSnakePrimer()
Returns set of initial snake ellipses.
|
MTBPolygon2DSet |
NucleusSeparator2DPeakSearch.getNRSEllipsoidSnakePrimer()
Creates and returns a set of polygons as starting regions for
snake analysis based on hypothesized ellipses from nucleus information
|
MTBPolygon2DSet |
NucleusSeparator2DPeakSearch.getNRSVoronoidSnakePrimer()
Creates and returns a set of polygons as starting regions for the snakes.
|
MTBPolygon2DSet |
NucleusSeparator2DPeakSearch.getSnakes()
Returns the result snakes.
|
MTBPolygon2DSet |
NucleusSeparator2DPeakSearch_RegionSeparator.getVoronoidSnakePrimer()
Returns set of snake polygons resulting from Voronoi tesselation.
|
Modifier and Type | Method and Description |
---|---|
MTBPolygon2DSet |
MTBPolygon2DSet.clone() |
Modifier and Type | Field and Description |
---|---|
(package private) MTBPolygon2DSet |
MTBPolygon2DSetROI.polygonSet
Set of 2D polygons.
|
private MTBPolygon2DSet |
RoiManagerAdapter.RoiReader.polys
Result polygon set, if target format are polygons or snakes.
|
Modifier and Type | Method and Description |
---|---|
MTBPolygon2DSet |
MTBPolygon2DSetROI.getPolygonSet()
Get 2D polygon set from Roi.
|
MTBPolygon2DSet |
RoiManagerAdapter.getPolygonSetFromRoiFile(String file,
boolean asSnakes)
Reads an ImageJ roi file into a set of polygons/snakes.
|
MTBPolygon2DSet |
RoiManagerAdapter.getPolygonSetFromRoiManager()
Reads ROI manager selections into a set of polygons/snakes.
|
MTBPolygon2DSet |
RoiManagerAdapter.RoiReader.getPolySet()
Get the polygon set.
|
Modifier and Type | Method and Description |
---|---|
void |
RoiManagerAdapter.addPolygonsToRoiManager(MTBPolygon2DSet polys)
Adds a set of polygons to the ROI manager.
|
Constructor and Description |
---|
MTBPolygon2DSetROI(MTBPolygon2DSet polySet,
String roiLabel)
Constructor to create a new Roi-Manager-Object, based on a MTBPolygon2DSet.
|
Modifier and Type | Field and Description |
---|---|
protected MTBPolygon2DSet |
LevelsetSolverPDE.invisibleRegionSet |
Modifier and Type | Field and Description |
---|---|
private MTBPolygon2DSet |
SnakeHelperOperators.RegionImageConverter.outSnakes
Result snakes.
|
Modifier and Type | Method and Description |
---|---|
static MTBPolygon2DSet |
MTBSnake.convertRegionsToSnakes(MTBImage image)
Converts the regions of a label/binary image into a set of snakes.
|
protected MTBPolygon2DSet |
SnakeHelperOperators.RegionImageConverter.getResultSnakes()
Returns resulting snake objects.
|
Modifier and Type | Field and Description |
---|---|
protected MTBPolygon2DSet |
SnakeOptimizer.initialSnakes
Set of initial snake contours.
|
protected MTBPolygon2DSet |
SnakeOptimizer.outSnakes
Result contours.
|
Modifier and Type | Field and Description |
---|---|
protected Vector<MTBPolygon2DSet> |
SnakeOptimizer.intermediateResults
Set of intermediate segmentation results, required for stack generation.
|
Modifier and Type | Method and Description |
---|---|
MTBPolygon2DSet |
SnakeOptimizerCoupled.getCurrentSnakes()
Returns a copy of the set of current snakes.
|
abstract MTBPolygon2DSet |
SnakeOptimizer.getCurrentSnakes()
Returns a copy of the current snake(s).
|
MTBPolygon2DSet |
SnakeOptimizerSingle.getCurrentSnakes()
Returns a set with current snake(!).
|
MTBPolygon2DSet |
SnakeOptimizer.getInitialSnakes()
Returns initial snake.
|
MTBPolygon2DSet |
SnakeOptimizer.getResultSnakes()
Returns the set of result snakes.
|
Modifier and Type | Method and Description |
---|---|
private static MTBImageRGB |
SnakeOptimizer.plotSnakesToImage(MTBPolygon2DSet polyset,
MTBImage image,
int[] colors)
Returns overlay of given snakes onto given image.
|
void |
SnakeOptimizer.setInitialSnakes(MTBPolygon2DSet inS)
Specify initial snakes.
|
Constructor and Description |
---|
SnakeOptimizerCoupled(MTBImage img,
MTBPolygon2DSet initSnakes,
SnakeOptimizerSingle sopt,
boolean[] activeArray)
Default constructor.
|
SnakeOptimizerSingleVarCalc(MTBImage img,
MTBPolygon2DSet initSnake,
MTBSet_SnakeEnergyDerivable energs,
MTBGammaUpdate gamUpdater,
Double gammas,
MTBTermination tc,
Boolean resample,
Double segLength)
Default constructor with parameters.
|
Modifier and Type | Field and Description |
---|---|
private MTBPolygon2DSet |
DrawPolygon2DSet.inputPolys
Set of polygons of type
MTBPolygon2D to draw. |
Constructor and Description |
---|
DrawPolygon2DSet(MTBPolygon2DSet ps)
Simple constructor with polygon set.
|
DrawPolygon2DSet(MTBPolygon2DSet ps,
MTBImageRGB img)
Constructor with polygon set and image.
|
Copyright © 2010–2020 Martin Luther University Halle-Wittenberg, Institute of Computer Science, Pattern Recognition and Bioinformatics. All rights reserved.