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S

saveToXML(Element) - Method in interface plugins.big.bigsnakeutils.icy.snake2D.Snake2D
Saves the execution parameters of the snake to an XML node.
saveToXML(Element) - Method in class plugins.big.bigsnakeutils.icy.snake2D.Snake2DNode
 
saveToXML(Node) - Method in class plugins.big.bigsnakeutils.icy.snake2D.Snake2DScale
Saves the scale in an XML node.
saveToXML(Element) - Method in class plugins.big.bigsnakeutils.icy.snake3D.Snake3DNode
 
saveToXML(Node) - Method in class plugins.big.bigsnakeutils.icy.snake3D.Snake3DScale
Saves the scale in an XML node.
sec(double) - Static method in class plugins.big.bigsnakeutils.process.process1D.BSplineBasis
Secant.
second - Variable in class plugins.big.bigsnakeutils.icy.gui.pair.Pair.Double
 
second - Variable in class plugins.big.bigsnakeutils.icy.gui.pair.Pair.Float
 
second - Variable in class plugins.big.bigsnakeutils.icy.gui.pair.Pair.Integer
 
Semicircle - Class in plugins.big.bigsnakeutils.shape.priorshapes.shapes
Shape prior with taking the shape of a semicircle.
Semicircle() - Constructor for class plugins.big.bigsnakeutils.shape.priorshapes.shapes.Semicircle
 
SequenceToArrayConverter - Class in plugins.big.bigsnakeutils.process.process3D
Utilities to transform Sequence objects to arrays.
SequenceToArrayConverter() - Constructor for class plugins.big.bigsnakeutils.process.process3D.SequenceToArrayConverter
 
sequenceToBinaryArray(Sequence) - Static method in class plugins.big.bigsnakeutils.process.process3D.SequenceToArrayConverter
Converts a binary Sequence to a boolean array.
sequenceToDoubleArray(Sequence) - Static method in class plugins.big.bigsnakeutils.process.process3D.SequenceToArrayConverter
Converts a Sequence to a double array.
setAbsoluteAccuracy(double) - Method in class plugins.big.bigsnakeutils.icy.snake2D.Snake2DPowellOptimizer
 
setAbsoluteAccuracy(double) - Method in class plugins.big.bigsnakeutils.icy.snake3D.Snake3DPowellOptimizer
 
setBounds(double, double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.EzVarPair
Set the bounds for both values of the pair.
setBounds(double, double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairEditor
Set the bounds for the both values of the pair.
setBounds(double, double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairRangeModel
Set the bounds for both values of the pair.
setComponentToolTipText(String) - Method in class plugins.big.bigsnakeutils.icy.gui.curve.CurveEditor
 
setComponentToolTipText(String) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairEditor
 
setControlPoint(int, Point2D) - Method in class plugins.big.bigsnakeutils.icy.gui.curve.Curve
Set the control point for the given index.
setControlPoint(int, double, double) - Method in class plugins.big.bigsnakeutils.icy.gui.curve.Curve
Set the control point for the given index.
setControlPoint(int, Point2D) - Method in class plugins.big.bigsnakeutils.icy.gui.curve.PolynomialCurve
 
setControlPoints(Vector<Point2D>) - Method in class plugins.big.bigsnakeutils.icy.gui.curve.Curve
Set the list of the control points.
setControlPoints(Vector<Point2D>) - Method in class plugins.big.bigsnakeutils.icy.gui.curve.PolynomialCurve
 
setCurrentIndex(int) - Method in class plugins.big.bigsnakeutils.icy.gui.curve.CurveCanvas
Selects a control point.
setCurve(Curve) - Method in class plugins.big.bigsnakeutils.icy.gui.curve.CurveCanvas
Sets the curve to display.
setFirst(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.Pair.Double
 
setFirst(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.Pair.Float
 
setFirst(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.Pair.Integer
 
setFirst(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.Pair
Set the first element of the pair.
setFirstBounds(double, double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.EzVarPair
Set the bounds for the first value of the pair.
setFirstBounds(double, double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairEditor
Set the bounds for the first value of the pair.
setFirstBounds(double, double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairRangeModel
Set the bounds for the first value of the pair.
setFirstMaximum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.EzVarPair
Set the maximum for the first value of the pair.
setFirstMaximum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairEditor
Set the maximum for the first value of the pair.
setFirstMaximum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairRangeModel
Set the maximum for the first value of the pair.
setFirstMaximum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.RangeRangeModel
 
setFirstMinimum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.EzVarPair
Set the minimum for the first value of the pair.
setFirstMinimum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairEditor
Set the minimum for the first value of the pair.
setFirstMinimum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairRangeModel
Set the minimum for the first value of the pair.
setFirstMinimum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.RangeRangeModel
 
setFirstStepSize(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.EzVarPair
Set the step size for the first value of the pair.
setFirstStepSize(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairEditor
Set the step size for the first value of the pair.
setFirstStepSize(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairRangeModel
Set the step size for the first value of the pair.
setIndexRefinement(int) - Method in interface plugins.big.bigsnakeutils.icy.snake2D.Snake2D
 
setInitialBracketingStep(double) - Method in class plugins.big.bigsnakeutils.icy.snake2D.Snake2DPowellOptimizer
 
setInitialBracketingStep(double) - Method in class plugins.big.bigsnakeutils.icy.snake3D.Snake3DPowellOptimizer
 
setLinkingWord(String) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.EzVarPair
Set the linking word displayed between the first and the second value of the pair.
setLinkingWord(String) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairEditor
Set the linking word displayed between the first and the second value of the pair.
setMaximalParabolicBracketingExcursion(double) - Method in class plugins.big.bigsnakeutils.icy.snake2D.Snake2DPowellOptimizer
 
setMaximalParabolicBracketingExcursion(double) - Method in class plugins.big.bigsnakeutils.icy.snake3D.Snake3DPowellOptimizer
 
setMaximum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.EzVarPair
Set the maximum for both values of the pair.
setMaximum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairEditor
Set the maximum for the both values of the pair.
setMaximum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairRangeModel
Set the maximum for both values of the pair.
setMinimum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.EzVarPair
Set the minimum for both values of the pair.
setMinimum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairEditor
Set the minimum for the both values of the pair.
setMinimum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairRangeModel
Set the minimum for both values of the pair.
setNodes(Snake2DNode[]) - Method in interface plugins.big.bigsnakeutils.icy.snake2D.Snake2D
This method provides a mutator to the snake-defining nodes.
setNodes(Snake3DNode[]) - Method in interface plugins.big.bigsnakeutils.icy.snake3D.Snake3D
This method provides a mutator to the snake-defining nodes.
setNonQuadraticBracketingDegeneracy(double) - Method in class plugins.big.bigsnakeutils.icy.snake2D.Snake2DPowellOptimizer
 
setNonQuadraticBracketingDegeneracy(double) - Method in class plugins.big.bigsnakeutils.icy.snake3D.Snake3DPowellOptimizer
 
setNumericalGradientStepSize(double) - Method in class plugins.big.bigsnakeutils.icy.snake2D.Snake2DPowellOptimizer
 
setNumericalGradientStepSize(double) - Method in class plugins.big.bigsnakeutils.icy.snake3D.Snake3DPowellOptimizer
 
setPair(double, double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.Pair
Set the values of the pair.
setPair(Pair) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.Pair
Set the values of the pair.
setProperty(String, double) - Method in class plugins.big.bigsnakeutils.icy.ellipsoid.AbstractEllipsoid
Set the value of a property.
setRelativeAccuracy(double) - Method in class plugins.big.bigsnakeutils.icy.snake2D.Snake2DPowellOptimizer
 
setRelativeAccuracy(double) - Method in class plugins.big.bigsnakeutils.icy.snake3D.Snake3DPowellOptimizer
 
setSecond(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.Pair.Double
 
setSecond(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.Pair.Float
 
setSecond(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.Pair.Integer
 
setSecond(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.Pair
Set the second element of the pair.
setSecondBounds(double, double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.EzVarPair
Set the bounds for the second value of the pair.
setSecondBounds(double, double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairEditor
Set the bounds for the second value of the pair.
setSecondBounds(double, double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairRangeModel
Set the bounds for the second value of the pair.
setSecondMaximum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.EzVarPair
Set the maximum for the second value of the pair.
setSecondMaximum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairEditor
Set the maximum for the second value of the pair.
setSecondMaximum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairRangeModel
Set the maximum for the second value of the pair.
setSecondMaximum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.RangeRangeModel
 
setSecondMinimum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.EzVarPair
Set the minimum for the second value of the pair.
setSecondMinimum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairEditor
Set the minimum for the second value of the pair.
setSecondMinimum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairRangeModel
Set the minimum for the second value of the pair.
setSecondMinimum(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.RangeRangeModel
 
setSecondStepSize(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.EzVarPair
Set the step size for the second value of the pair.
setSecondStepSize(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairEditor
Set the step size for the second value of the pair.
setSecondStepSize(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairRangeModel
Set the step size for the second value of the pair.
setShowControls(boolean) - Method in class plugins.big.bigsnakeutils.icy.gui.curve.CurveCanvas
Set if the control points have to be displayed.
setStepSize(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.EzVarPair
Set the step size for both values of the pair.
setStepSize(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairEditor
Set the step size for the both values of the pair.
setStepSize(double) - Method in class plugins.big.bigsnakeutils.icy.gui.pair.PairRangeModel
Set the step size for the both values of the pair.
setStrokeWidth(float) - Method in class plugins.big.bigsnakeutils.icy.snake2D.Snake2DScale
Returns the associated stroke width of the scale.
setT(int) - Method in class plugins.big.bigsnakeutils.icy.ellipsoid.AbstractEllipsoid
Set the time associated with this ellipsoid.
Settings - Class in plugins.big.bigsnakeutils.core
Offers global parameters (settings) and functions used by the plug-in.
Settings() - Constructor for class plugins.big.bigsnakeutils.core.Settings
 
setTitle(String) - Method in class plugins.big.bigsnakeutils.icy.gui.CollapsiblePanel
 
setVanishingGradientConvergence(double) - Method in class plugins.big.bigsnakeutils.icy.snake2D.Snake2DPowellOptimizer
 
setVanishingGradientConvergence(double) - Method in class plugins.big.bigsnakeutils.icy.snake3D.Snake3DPowellOptimizer
 
setVanishingStepConvergence(double) - Method in class plugins.big.bigsnakeutils.icy.snake2D.Snake2DPowellOptimizer
 
setVanishingStepConvergence(double) - Method in class plugins.big.bigsnakeutils.icy.snake3D.Snake3DPowellOptimizer
 
setVanishingTotalDisplacementConvergence(double) - Method in class plugins.big.bigsnakeutils.icy.snake2D.Snake2DPowellOptimizer
 
setVanishingTotalDisplacementConvergence(double) - Method in class plugins.big.bigsnakeutils.icy.snake3D.Snake3DPowellOptimizer
 
ShapeProjector - Class in plugins.big.bigsnakeutils.shape.priorshapes
Class that projects spline curves onto an affine invariant shape space.
ShapeProjector(PriorShape, Matrix, Matrix) - Constructor for class plugins.big.bigsnakeutils.shape.priorshapes.ShapeProjector
Constructor affine transform (discrete).
ShapeProjector(PriorShape, Matrix, Matrix, Matrix) - Constructor for class plugins.big.bigsnakeutils.shape.priorshapes.ShapeProjector
Constructor Similarity transform.
ShapeProjectorBuilder - Class in plugins.big.bigsnakeutils.shape.priorshapes
Factory class that constructs shape projectors.
ShapeProjectorBuilder(int) - Constructor for class plugins.big.bigsnakeutils.shape.priorshapes.ShapeProjectorBuilder
Constructor.
showControls() - Method in class plugins.big.bigsnakeutils.icy.gui.curve.CurveCanvas
Indicates if the control points are shown.
smooth(IcyBufferedImage, double) - Static method in class plugins.big.bigsnakeutils.process.process2D.FastGaussianFilter
Applies a fast implementation of a 2D Gaussian filter with a given standard deviation.
smooth(IcyBufferedImage, double, int, double) - Static method in class plugins.big.bigsnakeutils.process.process2D.FastGaussianFilter
Applies a fast implementation of a 2D Gaussian filter with a given standard deviation and tolerance.
smooth(double[], int, int, double) - Static method in class plugins.big.bigsnakeutils.process.process2D.FastGaussianFilter
Applies a fast implementation of a 2D Gaussian filter with a given standard deviation.
smooth(double[], int, int, double, int, double) - Static method in class plugins.big.bigsnakeutils.process.process2D.FastGaussianFilter
Applies a fast implementation of a 2D Gaussian filter with a given standard deviation and tolerance.
Snake2D - Interface in plugins.big.bigsnakeutils.icy.snake2D
This abstract class encapsulates the number-crunching aspect of snakes.
Snake2DNode - Class in plugins.big.bigsnakeutils.icy.snake2D
This class is used to store the snake-defining parameters.
Snake2DNode(double, double) - Constructor for class plugins.big.bigsnakeutils.icy.snake2D.Snake2DNode
This constructor builds a point that is initially neither frozen nor hidden.
Snake2DNode(double, double, boolean, boolean) - Constructor for class plugins.big.bigsnakeutils.icy.snake2D.Snake2DNode
This constructor builds a point with the given initial values.
Snake2DOptimizer - Class in plugins.big.bigsnakeutils.icy.snake2D
This class encapsulates the optimization aspects of snakes.
Snake2DOptimizer() - Constructor for class plugins.big.bigsnakeutils.icy.snake2D.Snake2DOptimizer
 
Snake2DPowellOptimizer - Class in plugins.big.bigsnakeutils.icy.snake2D
This class implements a optimization scheme for parametric snakes based on Powell's method.
Snake2DPowellOptimizer() - Constructor for class plugins.big.bigsnakeutils.icy.snake2D.Snake2DPowellOptimizer
 
Snake2DScale - Class in plugins.big.bigsnakeutils.icy.snake2D
This class is used to store the scales that are used to draw the skin of the snake.
Snake2DScale() - Constructor for class plugins.big.bigsnakeutils.icy.snake2D.Snake2DScale
This constructor builds a scale with default values.
Snake2DScale(Color, boolean) - Constructor for class plugins.big.bigsnakeutils.icy.snake2D.Snake2DScale
This constructor builds a scale with the provided colors and flags.
Snake2DScale(double[], double[], int, Color, boolean) - Constructor for class plugins.big.bigsnakeutils.icy.snake2D.Snake2DScale
This constructor builds a scale with the provided colors and flags.
Snake2DScale(float[], float[], int, Color, boolean) - Constructor for class plugins.big.bigsnakeutils.icy.snake2D.Snake2DScale
This constructor builds a scale with the provided colors and flags.
Snake3D - Interface in plugins.big.bigsnakeutils.icy.snake3D
This abstract class encapsulates the number-crunching aspect of snakes.
Snake3DNode - Class in plugins.big.bigsnakeutils.icy.snake3D
This class is used to store the snake-defining parameters.
Snake3DNode(double, double, double) - Constructor for class plugins.big.bigsnakeutils.icy.snake3D.Snake3DNode
This constructor builds a point that is initially neither frozen nor hidden.
Snake3DNode(double, double, double, boolean, boolean) - Constructor for class plugins.big.bigsnakeutils.icy.snake3D.Snake3DNode
This constructor builds a point with the given initial values.
Snake3DOptimizer - Class in plugins.big.bigsnakeutils.icy.snake3D
This class encapsulates the optimization aspects of snakes.
Snake3DOptimizer() - Constructor for class plugins.big.bigsnakeutils.icy.snake3D.Snake3DOptimizer
 
Snake3DPowellOptimizer - Class in plugins.big.bigsnakeutils.icy.snake3D
This class implements a optimization scheme for parametric snakes base on Powell's method.
Snake3DPowellOptimizer() - Constructor for class plugins.big.bigsnakeutils.icy.snake3D.Snake3DPowellOptimizer
 
Snake3DScale - Class in plugins.big.bigsnakeutils.icy.snake3D
This class is used to store the scales that are used to draw the skin of the snake.
Snake3DScale(int) - Constructor for class plugins.big.bigsnakeutils.icy.snake3D.Snake3DScale
This constructor builds a scale of length length.
Snake3DScale(int, Color, boolean) - Constructor for class plugins.big.bigsnakeutils.icy.snake3D.Snake3DScale
This constructor builds a scale with the provided colors and flags.
Snake3DScale(double[][], Color, boolean) - Constructor for class plugins.big.bigsnakeutils.icy.snake3D.Snake3DScale
This constructor builds a scale with the provided colors and flags.
Square - Class in plugins.big.bigsnakeutils.shape.priorshapes.shapes
Shape prior with taking the shape of a square with rounded edges.
Square() - Constructor for class plugins.big.bigsnakeutils.shape.priorshapes.shapes.Square
 
stopOptimizing() - Method in class plugins.big.bigsnakeutils.icy.snake2D.Snake2DOptimizer
A call to this method should result in the optimization being currently performed by this object to be interrupted.
stopOptimizing() - Method in class plugins.big.bigsnakeutils.icy.snake2D.Snake2DPowellOptimizer
Requests stopping the optimization process.
stopOptimizing() - Method in class plugins.big.bigsnakeutils.icy.snake3D.Snake3DOptimizer
A call to this method should result in the optimization being currently performed by this object to be interrupted.
stopOptimizing() - Method in class plugins.big.bigsnakeutils.icy.snake3D.Snake3DPowellOptimizer
Requests stopping the optimization process.
subdivConvolve(double[], double[], double[], int) - Static method in class plugins.big.bigsnakeutils.process.process1D.Convolver1D
Convolves a sequence with a kernel, and puts the result in a new array for the subdivision.

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