Index

A C E F G H I L M O P R S T
All Classes All Packages

A

applyCoefficientsToMark(DoubleMatrix2D, Mark, Dimensions) - Method in class org.anchoranalysis.plugin.points.bean.fitter.LinearLeastSquaresViaNormalEquationBase

Applies the calculated coefficients to the mark.

applyFitResultToMark(Ellipsoid, Dimensions, double) - Method in class org.anchoranalysis.plugin.points.bean.fitter.FitResult

Applies the fit result to an Ellipsoid mark.

applyRadiiSubtractScale(double, double) - Method in class org.anchoranalysis.plugin.points.bean.fitter.FitResult

Applies a subtraction and scaling to the radii of the ellipsoid.

assignTo(ConicFitterBase) - Method in class org.anchoranalysis.plugin.points.bean.fitter.ConicFitterBase

Copies fields in this (base) class to target.

atanHandlingNan(double) - Static method in class org.anchoranalysis.plugin.points.bean.fitter.EllipseStandardFormConverter

Calculates the arctangent, handling NaN values.

AxisRatioEllipsoid - Class in org.anchoranalysis.plugin.points.bean.feature

Calculates the axis ratio of an Ellipsoid.

AxisRatioEllipsoid() - Constructor for class org.anchoranalysis.plugin.points.bean.feature.AxisRatioEllipsoid

C

calculate(FeatureCalculationInput<FeatureInputSingleObject>) - Method in class org.anchoranalysis.plugin.points.bean.feature.EllipsoidBase

calculate(FeatureCalculationInput<FeatureInputSingleObject>) - Method in class org.anchoranalysis.plugin.points.bean.feature.Ellipticity

CalculateEllipseLeastSquares - Class in org.anchoranalysis.plugin.points.calculate.ellipse

Calculates the best-fit ellipse for an ObjectMask using linear least squares.

CalculateEllipseLeastSquares() - Constructor for class org.anchoranalysis.plugin.points.calculate.ellipse.CalculateEllipseLeastSquares

Creates a new instance of CalculateEllipseLeastSquares.

CalculateEllipsoidLeastSquares - Class in org.anchoranalysis.plugin.points.calculate.ellipsoid

Calculates the best-fit Ellipsoid for an object using linear least squares.

calculateWithEllipsoid(FeatureInputSingleObject, Ellipsoid) - Method in class org.anchoranalysis.plugin.points.bean.feature.AxisRatioEllipsoid

calculateWithEllipsoid(FeatureInputSingleObject, Ellipsoid) - Method in class org.anchoranalysis.plugin.points.bean.feature.EllipsoidBase

Calculates a feature value based on the fitted Ellipsoid.

calculateWithEllipsoid(FeatureInputSingleObject, Ellipsoid) - Method in class org.anchoranalysis.plugin.points.bean.feature.Ellipsoidicity

canEqual(Object) - Method in class org.anchoranalysis.plugin.points.bean.fitter.FitResult

canEqual(Object) - Method in class org.anchoranalysis.plugin.points.calculate.ellipse.CalculateEllipseLeastSquares

canEqual(Object) - Method in class org.anchoranalysis.plugin.points.calculate.ellipsoid.CalculateEllipsoidLeastSquares

centerPoint() - Method in class org.anchoranalysis.plugin.points.bean.fitter.EllipseStandardFormConverter

Gets the center point of the ellipse.

ConicFitterBase - Class in org.anchoranalysis.plugin.points.bean.fitter

Base class for conic fitters, providing common properties and methods.

ConicFitterBase() - Constructor for class org.anchoranalysis.plugin.points.bean.fitter.ConicFitterBase

convexHull2D(List<Point2i>) - Static method in class org.anchoranalysis.plugin.points.convexhull.ConvexHullUtilities

Apply a convex-hull algorithm to filter a set of points using the default minimum number of points.

convexHull2D(List<Point2i>, int) - Static method in class org.anchoranalysis.plugin.points.convexhull.ConvexHullUtilities

Apply a convex-hull algorithm to filter a set of points.

ConvexHull2D - Class in org.anchoranalysis.plugin.points.bean.convexhull

Sets particular voxels to high only if they exist on the convex-hull of the outline of a mask.

ConvexHull2D() - Constructor for class org.anchoranalysis.plugin.points.bean.convexhull.ConvexHull2D

ConvexHull3D - Class in org.anchoranalysis.plugin.points.bean.convexhull

Calculates a 3D convex hull from a binary mask.

ConvexHull3D() - Constructor for class org.anchoranalysis.plugin.points.bean.convexhull.ConvexHull3D

ConvexHullBase - Class in org.anchoranalysis.plugin.points.bean.convexhull

Base class for convex hull implementations.

ConvexHullBase() - Constructor for class org.anchoranalysis.plugin.points.bean.convexhull.ConvexHullBase

ConvexHullUtilities - Class in org.anchoranalysis.plugin.points.convexhull

Utility methods for calculating convex hulls on 2D points.

createDesignMatrix(List<Point3f>) - Method in class org.anchoranalysis.plugin.points.bean.fitter.LinearLeastSquaresViaNormalEquationBase

Creates the design matrix from the input points.

createDim() - Method in class org.anchoranalysis.plugin.points.bean.fitter.PointsFitterToMark

Creates and returns the Dimensions using the specified provider.

createFitResultFromMatrixAandCenter(DoubleMatrix2D, DoubleMatrix2D, boolean) - Static method in class org.anchoranalysis.plugin.points.bean.fitter.EllipsoidFitHelper

Creates a FitResult from the matrix A and center matrix.

createFromMask(Mask) - Method in class org.anchoranalysis.plugin.points.bean.convexhull.ConvexHullBase

createFromMask(Mask, Mask) - Method in class org.anchoranalysis.plugin.points.bean.convexhull.ConvexHull2D

createFromMask(Mask, Mask) - Method in class org.anchoranalysis.plugin.points.bean.convexhull.ConvexHull3D

createFromMask(Mask, Mask) - Method in class org.anchoranalysis.plugin.points.bean.convexhull.ConvexHullBase

Creates a convex hull from a mask and its outline.

createFromObjects(ObjectCollection) - Method in class org.anchoranalysis.plugin.points.bean.SplitContourAtSaddlePoints

createMarkEllipsoidLeastSquares(CheckedSupplier<List<Point3i>, CreateException>, Dimensions, boolean, double) - Static method in class org.anchoranalysis.plugin.points.calculate.ellipsoid.EllipsoidFactory

Creates a Ellipsoid using least-squares fitting to a supplied list of points.

createMarkEllipsoidLeastSquares(ObjectMask, Dimensions, boolean, double) - Static method in class org.anchoranalysis.plugin.points.calculate.ellipsoid.EllipsoidFactory

Creates a Ellipsoid using least-squares fitting to the points on the outline of an ObjectMask.

createObjects() - Method in class org.anchoranalysis.plugin.points.bean.fitter.PointsFitterToMark

Creates and returns the ObjectCollection using the specified provider.

E

EllipseStandardFormConverter - Class in org.anchoranalysis.plugin.points.bean.fitter

Extracts forms for 'standard form' representation of an ellipse from the coefficients for a 2nd order polynomial describing the ellipse.

EllipseStandardFormConverter(DoubleMatrix1D) - Constructor for class org.anchoranalysis.plugin.points.bean.fitter.EllipseStandardFormConverter

Creates a new EllipseStandardFormConverter and performs the conversion.

EllipsoidBase - Class in org.anchoranalysis.plugin.points.bean.feature

Base class for features that calculate properties of an Ellipsoid fitted to an object.

EllipsoidBase() - Constructor for class org.anchoranalysis.plugin.points.bean.feature.EllipsoidBase

EllipsoidFactory - Class in org.anchoranalysis.plugin.points.calculate.ellipsoid

Factory for creating Ellipsoid objects using least-squares fitting.

EllipsoidFitHelper - Class in org.anchoranalysis.plugin.points.bean.fitter

Helper class for fitting ellipsoids to point data.

Ellipsoidicity - Class in org.anchoranalysis.plugin.points.bean.feature

Calculates the ellipsoidicity of an object by fitting an Ellipsoid to it.

Ellipsoidicity() - Constructor for class org.anchoranalysis.plugin.points.bean.feature.Ellipsoidicity

Ellipticity - Class in org.anchoranalysis.plugin.points.bean.feature

Calculates the ellipticity of an ObjectMask (on the center of gravity slice if it's a z-stack).

Ellipticity() - Constructor for class org.anchoranalysis.plugin.points.bean.feature.Ellipticity

equals(Object) - Method in class org.anchoranalysis.plugin.points.bean.fitter.FitResult

equals(Object) - Method in class org.anchoranalysis.plugin.points.calculate.ellipse.CalculateEllipseLeastSquares

equals(Object) - Method in class org.anchoranalysis.plugin.points.calculate.ellipse.ObjectWithEllipse

equals(Object) - Method in class org.anchoranalysis.plugin.points.calculate.ellipsoid.CalculateEllipsoidLeastSquares

execute(FeatureInputSingleObject) - Method in class org.anchoranalysis.plugin.points.calculate.ellipse.CalculateEllipseLeastSquares

execute(FeatureInputSingleObject) - Method in class org.anchoranalysis.plugin.points.calculate.ellipsoid.CalculateEllipsoidLeastSquares

F

fit(List<Point3f>, Mark, Dimensions) - Method in class org.anchoranalysis.plugin.points.bean.fitter.LinearLeastSquaresEllipseFitter

fit(List<Point3f>, Mark, Dimensions) - Method in class org.anchoranalysis.plugin.points.bean.fitter.LinearLeastSquaresEllipsoidFitter

fit(List<Point3f>, Mark, Dimensions) - Method in class org.anchoranalysis.plugin.points.bean.fitter.LinearLeastSquaresViaNormalEquationBase

fit(List<Point3f>, Mark, Dimensions) - Method in class org.anchoranalysis.plugin.points.bean.fitter.Reference

fit(List<Point3f>, Mark, Dimensions) - Method in class org.anchoranalysis.plugin.points.bean.fitter.ReflectInAxesWithinDistance

FitPoints - Class in org.anchoranalysis.plugin.points.bean

A MarkProposer that fits points to a mark using a PointsProposer and a PointsFitter.

FitPoints() - Constructor for class org.anchoranalysis.plugin.points.bean.FitPoints

FitPointsFromObjects - Class in org.anchoranalysis.plugin.points.bean

A MarkCollectionProvider that fits points from objects to create marks.

FitPointsFromObjects() - Constructor for class org.anchoranalysis.plugin.points.bean.FitPointsFromObjects

fitPointsToMark(List<Point3f>, Mark, Dimensions) - Method in class org.anchoranalysis.plugin.points.bean.fitter.PointsFitterToMark

Fits a list of points to a mark using the specified points fitter.

FitResult - Class in org.anchoranalysis.plugin.points.bean.fitter

Represents the result of fitting an ellipsoid to a set of points.

FitResult() - Constructor for class org.anchoranalysis.plugin.points.bean.fitter.FitResult

G

get() - Method in class org.anchoranalysis.plugin.points.bean.FitPointsFromObjects

getCenterPoint() - Method in class org.anchoranalysis.plugin.points.bean.fitter.FitResult

The center point of the fitted ellipsoid.

getCenterPointX() - Method in class org.anchoranalysis.plugin.points.bean.fitter.EllipseStandardFormConverter

Gets the x-coordinate of the ellipse's center point.

getCenterPointY() - Method in class org.anchoranalysis.plugin.points.bean.fitter.EllipseStandardFormConverter

Gets the y-coordinate of the ellipse's center point.

getDimensions() - Method in class org.anchoranalysis.plugin.points.bean.fitter.PointsFitterToMark

Provides the Dimensions for the fitting operation.

getDistanceX() - Method in class org.anchoranalysis.plugin.points.bean.fitter.ReflectInAxesWithinDistance

getDistanceY() - Method in class org.anchoranalysis.plugin.points.bean.fitter.ReflectInAxesWithinDistance

getDistanceZ() - Method in class org.anchoranalysis.plugin.points.bean.fitter.ReflectInAxesWithinDistance

getId() - Method in class org.anchoranalysis.plugin.points.bean.fitter.Reference

The ID of the referenced PointsFitter.

getInputPointShift() - Method in class org.anchoranalysis.plugin.points.bean.fitter.ConicFitterBase

The shift to apply to input points before fitting.

getLogger() - Method in class org.anchoranalysis.plugin.points.bean.FitPoints

The logger for recording errors.

getMajorAxisAngle() - Method in class org.anchoranalysis.plugin.points.bean.fitter.EllipseStandardFormConverter

Gets the angle of the major axis in radians.

getMajorAxisSlope() - Method in class org.anchoranalysis.plugin.points.bean.fitter.EllipseStandardFormConverter

Gets the slope of the major axis.

getMark() - Method in class org.anchoranalysis.plugin.points.calculate.ellipse.ObjectWithEllipse

The best-fit ellipse for the object.

getMarkFactory() - Method in class org.anchoranalysis.plugin.points.bean.FitPointsFromObjects

The MarkFactory used to create new marks.

getMinNumberPoints() - Method in class org.anchoranalysis.plugin.points.bean.SplitContourAtSaddlePoints

If a contour has less than this number of points, we don't split it, and return it as-is

getMinNumPoints() - Method in class org.anchoranalysis.plugin.points.bean.fitter.PointsFitterToMark

The minimum number of points required for fitting.

getMinorAxisAngle() - Method in class org.anchoranalysis.plugin.points.bean.fitter.EllipseStandardFormConverter

Gets the angle of the minor axis in radians.

getMinorAxisSlope() - Method in class org.anchoranalysis.plugin.points.bean.fitter.EllipseStandardFormConverter

Gets the slope of the minor axis.

getMinRadius() - Method in class org.anchoranalysis.plugin.points.bean.fitter.LinearLeastSquaresEllipseFitter

getMinRadius() - Method in class org.anchoranalysis.plugin.points.bean.fitter.LinearLeastSquaresEllipsoidFitter

getNumberLoopPoints() - Method in class org.anchoranalysis.plugin.points.bean.SplitContourAtSaddlePoints

getObject() - Method in class org.anchoranalysis.plugin.points.calculate.ellipse.ObjectWithEllipse

The object mask.

getObjects() - Method in class org.anchoranalysis.plugin.points.bean.fitter.PointsFitterToMark

Provides the ObjectCollection to be used in the fitting process.

getPointsFitter() - Method in class org.anchoranalysis.plugin.points.bean.FitPoints

The PointsFitter used to fit points to a mark.

getPointsFitter() - Method in class org.anchoranalysis.plugin.points.bean.FitPointsFromObjects

The PointsFitterToMark used to fit points to marks.

getPointsFitter() - Method in class org.anchoranalysis.plugin.points.bean.fitter.PointsFitterToMark

The PointsFitter used to fit points to a mark.

getPointsFitter() - Method in class org.anchoranalysis.plugin.points.bean.fitter.ReflectInAxesWithinDistance

getPointsProposer() - Method in class org.anchoranalysis.plugin.points.bean.FitPoints

The PointsProposer used to generate points.

getRadiusX() - Method in class org.anchoranalysis.plugin.points.bean.fitter.FitResult

The radius of the ellipsoid along the X-axis.

getRadiusY() - Method in class org.anchoranalysis.plugin.points.bean.fitter.FitResult

The radius of the ellipsoid along the Y-axis.

getRadiusZ() - Method in class org.anchoranalysis.plugin.points.bean.fitter.FitResult

The radius of the ellipsoid along the Z-axis.

getRotMatrix() - Method in class org.anchoranalysis.plugin.points.bean.fitter.FitResult

The rotation matrix, which must be considered immutable to be used here.

getScaleRadii() - Method in class org.anchoranalysis.plugin.points.bean.fitter.ConicFitterBase

The scale factor to apply to the radii of the conic.

getSemiMajorAxis() - Method in class org.anchoranalysis.plugin.points.bean.fitter.EllipseStandardFormConverter

Gets the length of the semi-major axis.

getSemiMinorAxis() - Method in class org.anchoranalysis.plugin.points.bean.fitter.EllipseStandardFormConverter

Gets the length of the semi-minor axis.

getShell() - Method in class org.anchoranalysis.plugin.points.bean.fitter.ConicFitterBase

The shell thickness of the conic.

getSmoothingFactor() - Method in class org.anchoranalysis.plugin.points.bean.SplitContourAtSaddlePoints

getSubtractRadii() - Method in class org.anchoranalysis.plugin.points.bean.fitter.ConicFitterBase

The value to subtract from the radii of the conic.

H

hashCode() - Method in class org.anchoranalysis.plugin.points.bean.fitter.FitResult

hashCode() - Method in class org.anchoranalysis.plugin.points.calculate.ellipse.CalculateEllipseLeastSquares

hashCode() - Method in class org.anchoranalysis.plugin.points.calculate.ellipse.ObjectWithEllipse

hashCode() - Method in class org.anchoranalysis.plugin.points.calculate.ellipsoid.CalculateEllipsoidLeastSquares

I

imposeMinimumRadius(double) - Method in class org.anchoranalysis.plugin.points.bean.fitter.FitResult

Imposes a minimum radius on all axes of the ellipsoid.

isCompatibleWith(Mark) - Method in class org.anchoranalysis.plugin.points.bean.FitPoints

isCompatibleWith(Mark) - Method in class org.anchoranalysis.plugin.points.bean.fitter.LinearLeastSquaresEllipseFitter

isCompatibleWith(Mark) - Method in class org.anchoranalysis.plugin.points.bean.fitter.LinearLeastSquaresEllipsoidFitter

isCompatibleWith(Mark) - Method in class org.anchoranalysis.plugin.points.bean.fitter.Reference

isCompatibleWith(Mark) - Method in class org.anchoranalysis.plugin.points.bean.fitter.ReflectInAxesWithinDistance

isConvexHull() - Method in class org.anchoranalysis.plugin.points.bean.FitPointsFromObjects

If true, reduces the set of points by applying a convex-hull operation.

isErodeAtBoundary() - Method in class org.anchoranalysis.plugin.points.bean.convexhull.ConvexHullBase

Whether to erode the mask at the boundary before finding the contour.

isIgnoreFittingFailure() - Method in class org.anchoranalysis.plugin.points.bean.FitPointsFromObjects

If true, ignores fitting failures and continues processing.

isReportFitterErrors() - Method in class org.anchoranalysis.plugin.points.bean.FitPoints

Whether to report fitter errors.

isSuppressZ() - Method in class org.anchoranalysis.plugin.points.bean.feature.EllipsoidBase

If true, suppresses covariance in the z-direction.

isSuppressZCovariance() - Method in class org.anchoranalysis.plugin.points.bean.fitter.LinearLeastSquaresEllipsoidFitter

L

LinearLeastSquaresEllipseFitter - Class in org.anchoranalysis.plugin.points.bean.fitter

Fits a set of points to an ellipse using a linear least squares method.

LinearLeastSquaresEllipseFitter() - Constructor for class org.anchoranalysis.plugin.points.bean.fitter.LinearLeastSquaresEllipseFitter

LinearLeastSquaresEllipsoidFitter - Class in org.anchoranalysis.plugin.points.bean.fitter

Fits an ellipsoid to points using a linear least squares approach

LinearLeastSquaresEllipsoidFitter() - Constructor for class org.anchoranalysis.plugin.points.bean.fitter.LinearLeastSquaresEllipsoidFitter

LinearLeastSquaresViaNormalEquationBase - Class in org.anchoranalysis.plugin.points.bean.fitter

Base class for linear least squares fitting using the normal equation method.

LinearLeastSquaresViaNormalEquationBase() - Constructor for class org.anchoranalysis.plugin.points.bean.fitter.LinearLeastSquaresViaNormalEquationBase

M

minNumPoints() - Method in class org.anchoranalysis.plugin.points.bean.fitter.LinearLeastSquaresViaNormalEquationBase

Returns the minimum number of points required for fitting.

O

ObjectWithEllipse - Class in org.anchoranalysis.plugin.points.calculate.ellipse

A pair containing an ObjectMask and its corresponding best-fit Ellipse.

ObjectWithEllipse(ObjectMask, Ellipse) - Constructor for class org.anchoranalysis.plugin.points.calculate.ellipse.ObjectWithEllipse

of(FeatureCalculationInput<FeatureInputSingleObject>, boolean) - Static method in class org.anchoranalysis.plugin.points.calculate.ellipsoid.CalculateEllipsoidLeastSquares

Calculates an Ellipsoid for the given input.

onInitialization(PointsInitialization) - Method in class org.anchoranalysis.plugin.points.bean.fitter.Reference

org.anchoranalysis.plugin.points.bean - package org.anchoranalysis.plugin.points.bean

Beans that fit or otherwise manipulate sets of points.

org.anchoranalysis.plugin.points.bean.convexhull - package org.anchoranalysis.plugin.points.bean.convexhull

Convex hull operations.

org.anchoranalysis.plugin.points.bean.feature - package org.anchoranalysis.plugin.points.bean.feature

Features related to points and fitting points to conics.

org.anchoranalysis.plugin.points.bean.fitter - package org.anchoranalysis.plugin.points.bean.fitter

Fitting geometric structures to points.

org.anchoranalysis.plugin.points.calculate.ellipse - package org.anchoranalysis.plugin.points.calculate.ellipse

CalculationPart related to fitting ellipses to points by least-squares.

org.anchoranalysis.plugin.points.calculate.ellipsoid - package org.anchoranalysis.plugin.points.calculate.ellipsoid

CalculationPart related to fitting ellipsoids to points by least-squares.

org.anchoranalysis.plugin.points.convexhull - package org.anchoranalysis.plugin.points.convexhull

Non-bean convex hull operations.

P

PointsFitterToMark - Class in org.anchoranalysis.plugin.points.bean.fitter

A bean for fitting points to a mark using a specified points fitter.

PointsFitterToMark() - Constructor for class org.anchoranalysis.plugin.points.bean.fitter.PointsFitterToMark

pointsOnAllOutlines(ObjectCollection) - Static method in class org.anchoranalysis.plugin.points.convexhull.ConvexHullUtilities

Get points on all outlines of a collection of objects.

pointsOnOutline(ObjectMask) - Static method in class org.anchoranalysis.plugin.points.convexhull.ConvexHullUtilities

Get points on the outline of a single object.

propose(VoxelizedMarkMemo, ProposerContext) - Method in class org.anchoranalysis.plugin.points.bean.FitPoints

R

Reference - Class in org.anchoranalysis.plugin.points.bean.fitter

A PointsFitter that references another PointsFitter by its ID.

Reference() - Constructor for class org.anchoranalysis.plugin.points.bean.fitter.Reference

ReflectInAxesWithinDistance - Class in org.anchoranalysis.plugin.points.bean.fitter

Reflects points in each axes if all points are within a certain distance from it

ReflectInAxesWithinDistance() - Constructor for class org.anchoranalysis.plugin.points.bean.fitter.ReflectInAxesWithinDistance

S

setCenterPoint(Point3d) - Method in class org.anchoranalysis.plugin.points.bean.fitter.FitResult

The center point of the fitted ellipsoid.

setConvexHull(boolean) - Method in class org.anchoranalysis.plugin.points.bean.FitPointsFromObjects

If true, reduces the set of points by applying a convex-hull operation.

setDimensions(DimensionsProvider) - Method in class org.anchoranalysis.plugin.points.bean.fitter.PointsFitterToMark

Provides the Dimensions for the fitting operation.

setDistanceX(double) - Method in class org.anchoranalysis.plugin.points.bean.fitter.ReflectInAxesWithinDistance

setDistanceY(double) - Method in class org.anchoranalysis.plugin.points.bean.fitter.ReflectInAxesWithinDistance

setDistanceZ(double) - Method in class org.anchoranalysis.plugin.points.bean.fitter.ReflectInAxesWithinDistance

setErodeAtBoundary(boolean) - Method in class org.anchoranalysis.plugin.points.bean.convexhull.ConvexHullBase

Whether to erode the mask at the boundary before finding the contour.

setId(String) - Method in class org.anchoranalysis.plugin.points.bean.fitter.Reference

The ID of the referenced PointsFitter.

setIgnoreFittingFailure(boolean) - Method in class org.anchoranalysis.plugin.points.bean.FitPointsFromObjects

If true, ignores fitting failures and continues processing.

setInputPointShift(float) - Method in class org.anchoranalysis.plugin.points.bean.fitter.ConicFitterBase

The shift to apply to input points before fitting.

setMarkFactory(MarkFactory) - Method in class org.anchoranalysis.plugin.points.bean.FitPointsFromObjects

The MarkFactory used to create new marks.

setMinNumberPoints(int) - Method in class org.anchoranalysis.plugin.points.bean.SplitContourAtSaddlePoints

If a contour has less than this number of points, we don't split it, and return it as-is

setMinNumPoints(int) - Method in class org.anchoranalysis.plugin.points.bean.fitter.PointsFitterToMark

The minimum number of points required for fitting.

setMinRadius(double) - Method in class org.anchoranalysis.plugin.points.bean.fitter.LinearLeastSquaresEllipseFitter

setMinRadius(double) - Method in class org.anchoranalysis.plugin.points.bean.fitter.LinearLeastSquaresEllipsoidFitter

setNumberLoopPoints(int) - Method in class org.anchoranalysis.plugin.points.bean.SplitContourAtSaddlePoints

setObjects(ObjectCollectionProvider) - Method in class org.anchoranalysis.plugin.points.bean.fitter.PointsFitterToMark

Provides the ObjectCollection to be used in the fitting process.

setPointsFitter(PointsFitter) - Method in class org.anchoranalysis.plugin.points.bean.FitPoints

The PointsFitter used to fit points to a mark.

setPointsFitter(PointsFitter) - Method in class org.anchoranalysis.plugin.points.bean.fitter.PointsFitterToMark

The PointsFitter used to fit points to a mark.

setPointsFitter(PointsFitter) - Method in class org.anchoranalysis.plugin.points.bean.fitter.ReflectInAxesWithinDistance

setPointsFitter(PointsFitterToMark) - Method in class org.anchoranalysis.plugin.points.bean.FitPointsFromObjects

The PointsFitterToMark used to fit points to marks.

setPointsProposer(PointsProposer) - Method in class org.anchoranalysis.plugin.points.bean.FitPoints

The PointsProposer used to generate points.

setRadiusX(double) - Method in class org.anchoranalysis.plugin.points.bean.fitter.FitResult

The radius of the ellipsoid along the X-axis.

setRadiusY(double) - Method in class org.anchoranalysis.plugin.points.bean.fitter.FitResult

The radius of the ellipsoid along the Y-axis.

setRadiusZ(double) - Method in class org.anchoranalysis.plugin.points.bean.fitter.FitResult

The radius of the ellipsoid along the Z-axis.

setReportFitterErrors(boolean) - Method in class org.anchoranalysis.plugin.points.bean.FitPoints

Whether to report fitter errors.

setRotMatrix(DoubleMatrix2D) - Method in class org.anchoranalysis.plugin.points.bean.fitter.FitResult

The rotation matrix, which must be considered immutable to be used here.

setScaleRadii(double) - Method in class org.anchoranalysis.plugin.points.bean.fitter.ConicFitterBase

The scale factor to apply to the radii of the conic.

setShell(double) - Method in class org.anchoranalysis.plugin.points.bean.fitter.ConicFitterBase

The shell thickness of the conic.

setSmoothingFactor(double) - Method in class org.anchoranalysis.plugin.points.bean.SplitContourAtSaddlePoints

setSubtractRadii(double) - Method in class org.anchoranalysis.plugin.points.bean.fitter.ConicFitterBase

The value to subtract from the radii of the conic.

setSuppressZ(boolean) - Method in class org.anchoranalysis.plugin.points.bean.feature.EllipsoidBase

If true, suppresses covariance in the z-direction.

setSuppressZCovariance(boolean) - Method in class org.anchoranalysis.plugin.points.bean.fitter.LinearLeastSquaresEllipsoidFitter

SplitContourAtSaddlePoints - Class in org.anchoranalysis.plugin.points.bean

Splits a 2D contour represented by an object-mask into several contours, splitting at "turn" points.

SplitContourAtSaddlePoints() - Constructor for class org.anchoranalysis.plugin.points.bean.SplitContourAtSaddlePoints

T

toString() - Method in class org.anchoranalysis.plugin.points.bean.fitter.FitResult

toString() - Method in class org.anchoranalysis.plugin.points.calculate.ellipse.ObjectWithEllipse

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