A B C D E F G H I J L M N O P Q R S T U V W X Y Z

C

c - Variable in class gui.SearchGUI

combo box holding the database entries, to choose the input for the search

c1 - Variable in class gui.PSGMGui

combo box to choose the first matching object

c2 - Variable in class gui.PSGMGui

combo box to choose the second matching object

category - Variable in class main.AutomaticMatching

category - Variable in class retrieval.DatabaseEntry

the category of the serialized skeleton object

category - Variable in class retrieval.SearchThread

the category of the second skeleton objecz

category - Variable in class retrieval.SimilaritySearchResult

the category of the target skeleton object

changeWindowPanel(vtkRenderWindowPanel, List<vtkActor>) - Method in class io.visualize.MatchingViewer3DPanel

Update the window panel.

checkNeighborHood(Point) - Method in class io.loader.load2D.SkeletonParser2D

check if a skeleton end node is in the 3x3 neighbor hood of the specified contour point.

cl - Variable in class retrieval.SimilaritySearchResult

the found correspondences in the two skeleton objects

cleanedMatchList - Variable in class algorithm.CleanMatchingResult

reconstructed match list for the two original skeletons

cleanJunctionNodes(List<SkeletonNode>) - Method in class io.loader.load2D.SkeletonParser2D

In some constellations, directly adjacent nodes are recognized as junction nodes.

cleanJunctionNodes(List<SkeletonNode>, int[][][]) - Method in class io.loader.load3D.SkeletonParser3D

Clean the list of junction nodes.

CleanMatchingResult - Class in algorithm

Data structure to hold information about a matching between two skeleton objects.

CleanMatchingResult() - Constructor for class algorithm.CleanMatchingResult

cleanNodeArea() - Method in class io.loader.load2D.NodeArea2D

cleanNodeArea() - Method in class io.loader.load3D.NodeArea3D

cleanNodeArea() - Method in class io.loader.shared.NodeArea

extract the prefered junction node from this node area.

clearMatchings(Config, CleanMatchingResult) - Static method in class algorithm.matching.MatchingFilter

Clear the matching results according to the parameters specified in the config

clearMatchingsByAngle(CleanMatchingResult, boolean) - Static method in class algorithm.matching.MatchingFilter

Filter the specified match list by applying the following process: The matching visualization is simulated, that is, the skeletons are placed next to each other and the corresponding end nodes are connected by a line.

clearMatchingsByMean(MatchList) - Static method in class algorithm.matching.MatchingFilter

Filter the specified match list by deleting all matchings with a matching costs bigger than the mean of all matching costs.

clearMatchingsByMeanAndStd(MatchList) - Static method in class algorithm.matching.MatchingFilter

Filter the specified match list by deleting all matchings with a matching costs bigger than the mean of all matching costs plus the standard deviation.

clearMatchingsByMedian(MatchList) - Static method in class algorithm.matching.MatchingFilter

Filter the specified match list by deleting all matchings wih a matching cost bigger than the median of all matchings.

clearMatchingsByThreshold(double, MatchList) - Static method in class algorithm.matching.MatchingFilter

Clear the matching results in the specified matchlist by deleting all matchings with a matching cost bigger than the specified threshold

Colors - Class in io.loader

Define some constant colors.

Colors() - Constructor for class io.loader.Colors

compare(SkeletonBranch, SkeletonBranch) - Method in class geometry.object.SkeletonBranch

compareTo(Matching) - Method in class algorithm.matching.Matching

compareTo(SkeletonPath) - Method in class geometry.object.SkeletonPath

compareTo(SimilaritySearchResult) - Method in class retrieval.SimilaritySearchResult

Implementation of Comparable's compareTo.

computeAssignments(double[][], Config) - Method in class algorithm.matching.HungarianAlgorithm

computeAssignments(double[][], Config) - Method in interface algorithm.matching.MatchingAlgorithm

Compute the assignments for the given cost matrix.

computeAssignments(double[][], Config) - Method in class algorithm.matching.MultipleOSB

Deprecated.

computeAssignments(double[][], Config) - Method in class algorithm.matching.OSBfinalMatching

config - package config

Package containing all classes used to configure the execution of the algorithm.

config - Variable in class algorithm.Matching2D

holding configuration parameters

config - Variable in class algorithm.Matching3D

holding configuration parameters

config - Variable in class algorithm.psgm.CostGetter

holding configuration parameters

Config - Class in config

Configure the execution of the algorithm.

Config(String[]) - Constructor for class config.Config

Constructor.

Config() - Constructor for class config.Config

Constructor.

config - Variable in class io.loader.shared.SkeletonParser

config - Variable in class io.visualize.MatchingViewer3D

config - Variable in class io.visualize.MatchingViewer3DPanel

holding config parameters

config - Variable in class retrieval.SearchThread

configuring algorithm

ConfigTest - Class in test.io

Test the creation of a new Config instance, with a string array of arguments given.

ConfigTest() - Constructor for class test.io.ConfigTest

Constants - Class in config

Declaring some constants used for configuration.

Constants() - Constructor for class config.Constants

contains(Matching) - Method in class algorithm.matching.MatchList

check if a matchlist contains a specified matching

contains(SkeletonNode) - Method in class io.loader.shared.NodeArea

Test of this node area contains the specified skeleton node.

contains(List<SkeletonNode>, SkeletonNode) - Static method in class utils.ListUtilities

Test if a list haystack contains a specified skeleton node needle.

Contour - Class in io.loader.load2D.contours

data structure to hold contour information, part of Wilhelm Burger's imageJ plugin (http://www.imagingbook.com/)

Contour(int, int) - Constructor for class io.loader.load2D.contours.Contour

Contour(int) - Constructor for class io.loader.load2D.contours.Contour

ContourContainer - Class in io.loader.load2D.contours

A data structure to hold an object shape's inner and outer contours.

ContourContainer(List<Contour>, List<Contour>) - Constructor for class io.loader.load2D.contours.ContourContainer

constructor.

ContourGetter - Class in io.loader.load2D.contours

get the contours (inner and outer) for the object shape in a specified image.

ContourGetter() - Constructor for class io.loader.load2D.contours.ContourGetter

ContourTracer - Class in io.loader.load2D.contours

tracing the contour of an object shape in a given binary image - Wilhelm Burger's imageJ plugin (http://www.imagingbook.com/)

ContourTracer(ImageProcessor) - Constructor for class io.loader.load2D.contours.ContourTracer

ContourTraceTest - Class in test.io

Test the traversing of contours.

ContourTraceTest() - Constructor for class test.io.ContourTraceTest

ContourVisualizer - Class in io.visualize

visualizing a skeleton object's contours (inner and outer)

ContourVisualizer() - Constructor for class io.visualize.ContourVisualizer

Coordinates - Interface in geometry

The Coordinates interface provides the encapsulation of coordinates with more than two dimensions.

coordinates - Variable in class geometry.object.SkeletonNode

the skeleton node's coordinates

Coordinates2D - Class in geometry

Coordinates2D holds information about two-dimensional coordinates (x and y coordinate).

Coordinates2D(double, double) - Constructor for class geometry.Coordinates2D

constructor.

Coordinates3D - Class in geometry

data structure to hold 3D coordinates, extending the 2D coordinates strucure by a valid z-coordinate Coordinates

Coordinates3D(double, double, double) - Constructor for class geometry.Coordinates3D

constructor.

copyList(List) - Static method in class utils.ListUtilities

Copy the elements of one list to a new array list.

correspondences - Variable in class io.visualize.MatchingViewer

the correspondences to be displayed

cost - Variable in class algorithm.matching.Matching

the costs for this matching

CostGetter - Class in algorithm.psgm

Given two skeletons, get the costs to match two specified end nodes by first creating a path distance matrix and then applying OSBv5 to this matrix.

CostGetter(SkeletonObject, SkeletonObject, Config) - Constructor for class algorithm.psgm.CostGetter

Constructor.

costs - Variable in class retrieval.SimilaritySearchResult

the total costs to match the two objects

coverColumnsOfStarredZeroes(int[], int[]) - Method in class algorithm.matching.HungarianAlgorithm

just marke the columns covered for any coluimn containing a starred zero

createCoordinates(int, int, int, double, double, double) - Static method in class io.loader.load3D.Index2Coordinates

As the voxels are not square, we have to calculate the real coordinates for each voxel here.

createExtractSimilarityWith(Box) - Method in class gui.Matching3DGui

createFinalMatching(Box) - Method in class gui.Matching3DGui

createHandleBadMatchings(Box) - Method in class gui.Matching3DGui

createHungarianConfiguration(Box) - Method in class gui.Matching3DGui

createInput(Box) - Method in class gui.Matching3DGui

createLineActor(Index, Index, Dimensions, Dimensions, int) - Method in class io.visualize.MatchingViewer3D

Create a vtkActor for a line.

createLineActor(Index, Index, Dimensions, Dimensions, int) - Method in class io.visualize.MatchingViewer3DPanel

Create a vtkActor for a line.

createOrderEndnodes(Box) - Method in class gui.Matching3DGui

createPart(SkeletonNode, SkeletonNode, List<SkeletonNode>) - Static method in class io.loader.load2D.SampleParts2D

If an end node or junction node has been reached, this function can be used to create the part between the startnode and the current node.

createPart(SkeletonNode, SkeletonNode, List<SkeletonNode>) - Static method in class io.loader.load3D.SampleParts3D

If an end node or junction node has been reached, this function can be used to create the part between the startnode and the current node.

createPathDistanceBox(Box) - Method in class gui.Matching3DGui

createPreprocessingSkeletons(Box) - Method in class gui.Matching3DGui

createSkeletonActor(int[][][], SkeletonObject) - Method in class io.visualize.MatchingViewer3D

create an actor for a 3D skeleton cube.

createSkeletonActor(int[][][], SkeletonObject) - Method in class io.visualize.MatchingViewer3DPanel

Create a skeleton actor from the 3D thinning cube.

createSkeletonVisualization() - Method in class io.visualize.MatchingViewer

create the skeleton- and matching visualization

createSurfaceActor(SkeletonObject) - Method in class io.visualize.MatchingViewer3DPanel

Create an actor for the volume's surface.

createVisualization(Box) - Method in class gui.Matching3DGui

createVtkPointsFrom3DCube(double[][][]) - Static method in class io.visualize.Visualize3DCube