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Uses of MTBOperator in de.unihalle.informatik.MiToBo.apps.actinAnalysis |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.apps.actinAnalysis | |
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class |
ActinAnalyzer2D
Operator for analyzing actin filament structures in 2D images. |
class |
ActinFeatureExtractorEigenStructures
Operator for extracting Eigen structures as features for the ActinAnalyzer2D . |
class |
ActinFeatureExtractorHaralickMeasures
Operator for extracting Haralick texture measures from cooccurrence matrices as features for the ActinAnalyzer2D . |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.apps.neurites2D |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.apps.neurites2D | |
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class |
NeuriteDetector2D
The Neurite Detector 2D application offers advanced functionality to detect neurites in 2D fluorescence microscope images of neurons. |
class |
NeuriteExtractor2D
The Neurite Extractor 2D application offers advanced functionality to extract neurite regions in 2D binary neuron images of neurons. |
class |
NeuriteMolProfExtractor2D
The Neurite Molecular Profile Extractor 2D application offers advanced functionality to extract molecular intensity profiles of multichannel fluorescence images along detected neurite regions. |
class |
NeuriteParticleDetector2D
This operator detects particles of a neuron image, for example from FISH analysis. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.apps.neurons2D |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.apps.neurons2D | |
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class |
NeuronAnalyzer2D
The Neuron Analyzer 2D application offers advanced functionality to analyze 2D fluorescence microscope images of neurons. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.apps.nuclei2D |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.apps.nuclei2D | |
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class |
NuclearParticleDetector2D
This class detects nuclei and particles inside these nuclei and gives some statistics about particles, like particle number per nuclei, particle size, sum of intensities, etc. |
class |
NucleusDetector2D
Operator for segmenting cell nuclei in 2D images. |
class |
NucleusSeparator2D
Class provides routines for separating conglomerates of cell nuclei in 2D. |
class |
NucleusSeparator2DAlgos
Common super class for all nucleus separators. |
class |
NucleusSeparator2DBeamCut
Class provides routines for separating conglomerates of cell nuclei in 2D. |
class |
NucleusSeparator2DPeakSearch
Operator for separating merged nuclei regions in images. |
class |
NucleusSeparator2DPeakSearch_RegionSeparator
Operator to analyze a given binary image or a set of nuclei regions. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.apps.particles2D |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.apps.particles2D | |
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class |
MultiChannelParticleAnalyzer2D
Operator for detecting sub-cellular structures in a given image. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.apps.scratchAssay |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.apps.scratchAssay | |
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class |
ScratchAssayAnalyzer
class for analyzing the scratch area in several scratch assay images |
class |
ScratchAssaySegmenter
class for segmenting the wound area of a scratch assay image First the image is smoothed. |
class |
ScratchAssaySVMTrainer
class for training and cross validating a support vector machine for classification of scratch assay images into images containing a scratch and those that don't |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.apps.singleCellTracking2D |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.apps.singleCellTracking2D | |
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class |
CellMigrationAnalyzer
Operator for segmenting, tracking and analyzing 2D image sequences of fluorescently labeled cells |
class |
CellSegmentationPostprocessing
operator for doing common postprocessing tasks on already segmented cell images |
class |
CellSegmenter
base class for cell segmentation |
class |
CellTrackerBipartite
This operator assigns unique labels to regions representing individual cells in the input binary image sequence |
class |
FluorescentCellSegmenter
This operator is for segmenting images or image sequences containing fluorescently labeled cells |
class |
MigrationAnalyzer
Operator for analyzing the movement pattern of cells as well as changes in morphology and fluorescence intensity |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.apps.xylem |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.apps.xylem | |
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class |
XylemDetector
This operator implements xylem detection in RGB or HSX images. |
class |
XylemGrower
This operators implements region growing for xylem segmentation. |
class |
XylemInitialSegmentation
Purpose of this operator is to make an initial segmentation of Xylem Cell Images. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.clustering |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.clustering | |
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class |
KMeans
Clustering of (feature) vectors with k-means based on Weka library. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.color.conversion |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.color.conversion | |
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class |
HSIToRGBPixelConverter
Operator to convert a single HSI value to RGB. |
class |
HSVToRGBPixelConverter
Class to convert values from HSV color space into other color spaces like RGB or so. |
class |
RGBToHSXConverter
Converts an image of type MTBImageRGB ( RGB color space )
into an image with HSX( hue saturation intensity/brightness/value ) color
space. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.color.visualization |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.color.visualization | |
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class |
ArrayToColorMapImage
This operator visualizes a 2D array using a specified color mapping. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.core.datatypes.images |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.core.datatypes.images | |
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class |
MTBImage.MTBImageFactory
A class for creating MTBImages which implements the MTBOperator. |
Methods in de.unihalle.informatik.MiToBo.core.datatypes.images with parameters of type MTBOperator | |
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MTBImage |
MTBImage.convertType(MTBOperator callingOperator,
MTBImage.MTBImageType type,
boolean scaleDown)
Create an image of given type from this image's values. |
MTBImage |
MTBImage.duplicate(MTBOperator callingOperator)
Duplicates the object. |
MTBImage |
MTBImage.getCurrentSlice(MTBOperator callingOperator)
Get a copy of the current slice. |
MTBImage |
MTBImage.getImagePart(MTBOperator callingOperator,
int x,
int y,
int z,
int t,
int c,
int sizeX,
int sizeY,
int sizeZ,
int sizeT,
int sizeC)
Get a copy of a part of this image as new MTBImage. |
MTBImage |
MTBImage.getSlice(MTBOperator callingOperator,
int z,
int t,
int c)
Get a copy of the specified slice. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.enhance |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.enhance | |
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class |
GammaCorrection2D
Gamma correction on a 8- oder 16-bit image for one- or multi-channel images. |
class |
IlluminationCorrection
This class corrects the uneven illumination (e.g. background gradient) of especially gray value bright filed or DIC images. |
class |
LocallyAdaptiveContrastEnhancement
This class implements contrast enhancement for microscopy images. |
class |
TopHatContrastEnhancement
This class enhances the contrast by top-hat operations, especially for gray value bright filed or DIC images. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.features |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.features | |
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class |
FeatureCalculator
Super class for operators calculating features on images. |
class |
TileFeatureCalculator
Calculates features on images tile-wise, based on operators extending FeatureCalculator . |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.features.statistical |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.features.statistical | |
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class |
FeatureCalculatorIntensityStats
Calculates statistical features on images tile-wise, based on FeatureCalculator . |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.features.texture |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.features.texture | |
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class |
FeatureCalculatorHaralickMeasures
Calculates set of Haralick co-occurrence texture features from an image. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.fields |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.fields | |
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class |
FieldOperations2D
Class implements several operations on a 2D vector field. |
class |
GradientFieldCalculator2D
Class to calculate a gradient vector field of a given image. |
class |
GVFFieldCalculator2D
Class to calculate a special 2D vector field, a Gradient Vector Flow Field (GVF) with its x- and y-flows from the given image. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.filters.linear |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.filters.linear | |
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class |
GaussFilter
Multidimensional Gauss filter class. |
class |
LinearFilter
Generic linear filter operation class |
class |
MeanFilter
Multidimensional mean filter |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.filters.linear.anisotropic |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.filters.linear.anisotropic | |
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class |
ChaudhuriMatchedFilter2D
2D Matched filter. |
class |
GaborFilter2D
2D Gabor filter. |
class |
GaussPDxFilter2D
2D linear filter implementing first partial derivative of a Gaussian in x. |
class |
GaussPDxxFilter2D
2D filter implementing second partial derivative of Gaussian in x. |
class |
OrientedFilter2D
Base class for anisotropic linear filters in 2D. |
class |
OrientedFilter2DBatchAnalyzer
Base class for applying oriented filters in different orientations. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.filters.nonlinear |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.filters.nonlinear | |
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class |
RankOperator
Rank operator class to compute Median, Minimum or Maximum filter for hyperstack, stack and plain images. |
class |
StatisticsFilter
class for calculating several statistical values for the neighborhood of the pixels in an image |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.filters.vesselness |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.filters.vesselness | |
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class |
MedialnessMultiScaleFilter2D
2D multi-scale medialness filter for vessel segmentation. |
class |
MFFDOGFilter2D
MF-FDOG filter for vessel segmentation. |
class |
MFFDOGMultiScaleFilter2D
MF-FDOG multi-scale filter for vessel segmentation. |
class |
MPMFFilter2D
Multiscale Production of the Matched Filter (MPMF) implementation. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.io.images |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.io.images | |
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class |
ImageReaderMTB
Image reader operator to create MTBImage or ImagePlus objects from image files while reading and restoring image history from corresponding history files (.mph). |
class |
ImageWriterMTB
Image writer operator to store MTBImage or ImagePlus to disk along with the image history (.mph) file. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.math.images |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.math.images | |
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class |
ImageArithmetics
Image arithmetics class for MTBImage objects. |
class |
ImageStatistics
Class offering statistical calculations on objects of type MTBImage . |
Constructors in de.unihalle.informatik.MiToBo.math.images with parameters of type MTBOperator | |
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MTBImageArithmetics(MTBOperator callingOperator)
Constructor with calling operator. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.math.optimization |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.math.optimization | |
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class |
MatchingBipartite
Base class for bipartite matching algorithms. |
class |
MatchingBipartite_HungarianAlgorithm
Bipartite matching with Hungarian algorithm. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.math.statistics |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.math.statistics | |
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class |
PCA
This class implements the Karhunen-Loeve transformation, also known as PCA. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.morphology |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.morphology | |
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class |
BasicMorphology
class implementing basic morphological operations (for use with grayscale as well as with binary images) |
class |
ComponentPostprocess
Methods for post-processing components/pixels in binary images. |
class |
DistanceTransform
Class to calculate a distance map / field from a binary image using the Champfer-algorithm from G. |
class |
HDomeTransform3D
H-dome transform in 3D (straightforward use with 2D-images). |
class |
ImgClose
This class implements morphological closing on 2D binary/grayscale images. |
class |
ImgDilate
This class implements morphological dilation on 2D binary/grayscale images. |
class |
ImgErode
This class implements morphological erosion on 2D binary/grayscale images. |
class |
ImgOpen
This class implements morphological opening on 2D binary/grayscale images. |
class |
ImgTophat
This class implements the tophat operator. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.basics |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.basics | |
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class |
CalcSegmentationStatistics
Operator for doing statistical calculations on segmentations of images. |
class |
SegmentationInitializer
Operator for initializing objects of type MTBSegmentationInterface . |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.contours.extraction |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.contours.extraction | |
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class |
BordersOnLabeledComponents
Class to extract borders from connected components. |
class |
ContourOnLabeledComponents
Class to segment contours from a binary image using the contour following algorithm. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.evaluation |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.evaluation | |
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class |
CalcStructureStatistics
Extracts statistics from cell and structure segmentation results. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.levelset.core |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.levelset.core | |
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class |
LevelsetSolver
Generic super class for level set solvers. |
class |
LevelsetSolverDerivatives
Level set solver using variational calculus. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.levelset.nonPDE |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.levelset.nonPDE | |
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class |
LevelsetSegmentationNonPDE
Operator intended as user interface for level set segmentation using nonPDE optimization and optionally topology preserving. |
class |
LevelsetSolveNonPDE
Implements a level set solver which may optionally perserve the topology using non PDE optimization. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.levelset.PDE.solver |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.levelset.PDE.solver | |
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class |
LevelsetSolverPDE
Solver for level set segmentation problems based on PDEs. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.regions.convert |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.regions.convert | |
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class |
Region2DSetFromLabelimage
Operator to convert 2D label image to a MTBRegionsSet2D. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.regions.filling |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.regions.filling | |
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class |
FillHoles2D
Operator to fill holes in connected components of binary or label image. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.regions.labeling |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.regions.labeling | |
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class |
LabelComponentsSequential
Sequential component labeling for binarized 2D images to find connected components. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.regions.mser |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.regions.mser | |
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class |
DetectMSERs
Implementation of maximally stable extremal regions based on ImgLib2. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.thresholds |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.segmentation.thresholds | |
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class |
CalcGlobalThreshOtsu
This class implements routines to calculate Otsu's threshold from given grayscale images. |
class |
HysteresisThresholding
Hysteresis thresholding on gray-scale images. |
class |
ImgThresh
Image thresholding operator with lower threshold ( threshold and upper threshold
(upperThreshold . |
class |
ImgThreshNiblack
Image binarization based on local Niblack thresholding. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.tools.image |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.tools.image | |
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class |
CropImage
Crop an image part. |
class |
ImageContrastReducer
Contrast-reduction of images by reducing number of gray-scale values. |
class |
ImageConverter
Plugin to convert images that are represented by MTBImage. |
class |
ImageDimensionReducer
|
class |
ImageToTilesSplitter
Operator to split an image into tiles and save them to disk. |
class |
ImageValueTools
An operator class for different simple operations on the values of an image like inversion, filling with a constant value, etc. |
Methods in de.unihalle.informatik.MiToBo.tools.image with parameters of type MTBOperator | |
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static void |
ImageValueTools.fillImage(MTBImage img,
Color rgbvalue,
MTBOperator callingOperator)
Fill the image with a RGB color value. |
static void |
ImageValueTools.fillImage(MTBImage img,
double grayvalue,
MTBOperator callingOperator)
Fill the specified image with a gray value. |
static void |
ImageValueTools.invertImage(MTBImage img,
MTBOperator callingOperator)
Invert the specified image. |
static void |
ImageValueTools.normImageFromTo(MTBImage img,
double oldMinVal,
double oldMaxVal,
double newMinVal,
double newMaxVal,
MTBOperator callingOperator)
Normalize the image values to range [lowerBound, upperBound]. |
static void |
ImageValueTools.normImageTo(MTBImage img,
double lowerBound,
double upperBound,
MTBOperator callingOperator)
Normalize the image values to range [lowerBound, upperBound]. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.tracking.multitarget.algo |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.tracking.multitarget.algo | |
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class |
MultiObservationTrackerRBMCDAIMM
Tracking of multiple targets using Rao-Blackwellized Monte Carlo Data Association (RBMCDA) for observation-to-target association and Interacting Multiple Models (IMM) filters for target state estimation. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.tracking.multitarget.datatools |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.tracking.multitarget.datatools | |
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class |
DataConverter<S,T>
An operator class to convert between data types. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.tracking.multitarget.eval |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.tracking.multitarget.eval | |
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class |
TrackEvaluator
|
Uses of MTBOperator in de.unihalle.informatik.MiToBo.visualization.drawing |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.visualization.drawing | |
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class |
DrawPolygon2DSet
A class to visualize 2D polygons. |
class |
DrawRegion2DSet
A class to visualize 2D regions. |
class |
DrawTracks2D
Draw trajectories of tracked observations over time. |
class |
MTBPlotHistogram
A class to visualize 2D polygons. |
Uses of MTBOperator in de.unihalle.informatik.MiToBo.visualization.plots |
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Subclasses of MTBOperator in de.unihalle.informatik.MiToBo.visualization.plots | |
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class |
BoxWhiskerChartPlotter
Operator that generates box-whisker plots using JFreeChart. |
class |
StackedBarChartPlotter
Operator that generates stacked bar plots using JFreeChart. |
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