A B C D E G I J K L M N O P R S T V W X Y

A

AbstractOverlapResolver - Class in de.biomedical_imaging.ij.steger

Abstract superclass for OverlapResolver implementations.

AbstractOverlapResolver() - Constructor for class de.biomedical_imaging.ij.steger.AbstractOverlapResolver

actionPerformed(ActionEvent) - Method in class de.biomedical_imaging.ij.steger.ResetToDefaultListener

addButton(String, ActionListener) - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

Add button to the dialog.

addComponent(Component) - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

Adds the component.

addComponent(Component, int, double) - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

Adds the component.

addDirectoryField(String, String) - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

Adds the directory field.

addDirectoryField(String, String, int) - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

Adds the directory field.

addDirectoryOrFileField(String, String) - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

Adds the directory or file field.

addDirectoryOrFileField(String, String, int) - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

Adds the directory or file field.

addFileField(String, String) - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

Adds the file field.

addFileField(String, String, int) - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

Adds the file field.

addImage(String) - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

Adds an image to the generic dialog.

addImage(URL) - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

Adds an image to the generic dialog.

addImage(ImageIcon) - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

Adds an image to the generic dialog.

addImageChoice(String, String) - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

Adds the image choice.

addStringField(String, String, int) - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

addToRoiManager() - Method in class de.biomedical_imaging.ij.steger.Lines_

Adds the to roi manager.

B

BC(int, int) - Static method in class de.biomedical_imaging.ij.steger.LinesUtil

Bc.

BR(int, int) - Static method in class de.biomedical_imaging.ij.steger.LinesUtil

Br.

bresenham(double, double, double, double, double, Offset[], MutableInt) - Method in class de.biomedical_imaging.ij.steger.Width

Bresenham.

C

Chord - Class in de.biomedical_imaging.ij.steger

The Class Chord.

Chord() - Constructor for class de.biomedical_imaging.ij.steger.Chord

compareTo(Crossref) - Method in class de.biomedical_imaging.ij.steger.Crossref

compareTo(Junction) - Method in class de.biomedical_imaging.ij.steger.Junction

compute_contours(byte[], float[], float[], float[], float[], float[], float[], float[], Lines, MutableInt, double, boolean, int, double, double, int, int, Junctions) - Method in class de.biomedical_imaging.ij.steger.Link

Compute contours.

compute_eigenvals(double, double, double, double[], double[][]) - Method in class de.biomedical_imaging.ij.steger.Position

Compute the eigenvalues and eigenvectors of the Hessian matrix given by dfdrr, dfdrc, and dfdcc, and sort them in descending order according to their absolute values.

compute_gauss_mask_0(MutableLong, double) - Method in class de.biomedical_imaging.ij.steger.Convol

Compute gauss mask 0.

compute_gauss_mask_1(MutableLong, double) - Method in class de.biomedical_imaging.ij.steger.Convol

Compute gauss mask 1.

compute_gauss_mask_2(MutableLong, double) - Method in class de.biomedical_imaging.ij.steger.Convol

Compute gauss mask 2.

compute_line_width(float[], float[], int, int, double, int, boolean, ArrayList<Line>, MutableInt) - Method in class de.biomedical_imaging.ij.steger.Width

Compute line width.

Convol - Class in de.biomedical_imaging.ij.steger

The Class Convol.

Convol() - Constructor for class de.biomedical_imaging.ij.steger.Convol

convolve_gauss(float[], float[], int, int, double, int) - Method in class de.biomedical_imaging.ij.steger.Convol

Convolve gauss.

Correct - Class in de.biomedical_imaging.ij.steger

The Class Correct.

Correct() - Constructor for class de.biomedical_imaging.ij.steger.Correct

Correction - Class in de.biomedical_imaging.ij.steger

The Class Correction.

Correction(double, double, double, double, double, double, double, boolean) - Constructor for class de.biomedical_imaging.ij.steger.Correction

Instantiates a new correction.

createImageIcon(URL) - Static method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

Returns an ImageIcon, or null if the path was invalid.

Crossref - Class in de.biomedical_imaging.ij.steger

The Class Crossref.

Crossref() - Constructor for class de.biomedical_imaging.ij.steger.Crossref

D

de.biomedical_imaging.ij.steger - package de.biomedical_imaging.ij.steger

DERIV_C - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant DERIV_C.

DERIV_CC - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant DERIV_CC.

DERIV_R - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant DERIV_R.

DERIV_RC - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant DERIV_RC.

DERIV_RR - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant DERIV_RR.

detect_lines(float[], int, int, Lines, MutableInt, double, double, double, int, boolean, boolean, boolean, Junctions) - Method in class de.biomedical_imaging.ij.steger.Position

Detect lines.

detectLines(ImageProcessor, double, double, double, double, double, boolean, boolean, boolean, boolean) - Method in class de.biomedical_imaging.ij.steger.LineDetector

Detect lines.

detectLines(ImageProcessor, double, double, double, double, double, boolean, boolean, boolean, boolean, OverlapOption) - Method in class de.biomedical_imaging.ij.steger.LineDetector

Detect lines.

dialogItemChanged(GenericDialog, AWTEvent) - Method in class de.biomedical_imaging.ij.steger.Lines_

E

ERR_CNW - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant ERR_CNW.

ERR_FNF - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant ERR_FNF.

ERR_HNS - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant ERR_HNS.

ERR_HOR - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant ERR_HOR.

ERR_INP - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant ERR_INP.

ERR_LGH - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant ERR_LGH.

ERR_LNS - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant ERR_LNS.

ERR_LOR - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant ERR_LOR.

ERR_NOMEM - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant ERR_NOMEM.

ERR_NOPGM - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant ERR_NOPGM.

ERR_SNS - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant ERR_SNS.

ERR_SOR - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant ERR_SOR.

ERR_TMF - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant ERR_TMF.

ERR_UKO - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant ERR_UKO.

estimateLength() - Method in class de.biomedical_imaging.ij.steger.Line

Estimate length.

G

GenericDialogPlus - Class in de.biomedical_imaging.ij.steger

The GenericDialogPlus class enhances the GenericDialog by a few additional methods.

GenericDialogPlus(String) - Constructor for class de.biomedical_imaging.ij.steger.GenericDialogPlus

Instantiates a new generic dialog plus.

GenericDialogPlus(String, Frame) - Constructor for class de.biomedical_imaging.ij.steger.GenericDialogPlus

Instantiates a new generic dialog plus.

getAngle() - Method in class de.biomedical_imaging.ij.steger.Line

Gets the angle.

getAsymmetry() - Method in class de.biomedical_imaging.ij.steger.Line

Gets the asymmetry.

getConstraints() - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

Gets the constraints.

getContourClass() - Method in class de.biomedical_imaging.ij.steger.Line

Gets the contour class.

getCTable(int, int) - Static method in class de.biomedical_imaging.ij.steger.Correct

Gets the c table.

getDetectedJunctions() - Method in class de.biomedical_imaging.ij.steger.Lines_

Return the detected junctions.

getDetectedLines() - Method in class de.biomedical_imaging.ij.steger.Lines_

Return the detected lines.

getFrame() - Method in class de.biomedical_imaging.ij.steger.Junctions

Gets the frame.

getFrame() - Method in class de.biomedical_imaging.ij.steger.Line

Gets the frame.

getFrame() - Method in class de.biomedical_imaging.ij.steger.Lines

Gets the frame.

getHigh() - Method in class de.biomedical_imaging.ij.steger.Options

Gets the high.

getID() - Method in class de.biomedical_imaging.ij.steger.Line

Gets the id.

getIndexByID(int) - Method in class de.biomedical_imaging.ij.steger.Lines

Gets the index by ID.

getInstance() - Static method in class de.biomedical_imaging.ij.steger.Lines_

Access the results from an external plugin.

getIntensity() - Method in class de.biomedical_imaging.ij.steger.Line

Gets the intensity.

getJunctions() - Method in class de.biomedical_imaging.ij.steger.LineDetector

Gets the junctions.

getLine1() - Method in class de.biomedical_imaging.ij.steger.Junction

Gets the line 1.

getLine2() - Method in class de.biomedical_imaging.ij.steger.Junction

Gets the line 2.

getLineClass() - Method in class de.biomedical_imaging.ij.steger.Line

Gets the line class.

getLineWidthL() - Method in class de.biomedical_imaging.ij.steger.Line

Gets the line width L.

getLineWidthR() - Method in class de.biomedical_imaging.ij.steger.Line

Gets the line width R.

getLow() - Method in class de.biomedical_imaging.ij.steger.Options

Gets the low.

getmaxLength() - Method in class de.biomedical_imaging.ij.steger.Options

Gets the max length.

getminLength() - Method in class de.biomedical_imaging.ij.steger.Options

Gets the min length.

getMode() - Method in class de.biomedical_imaging.ij.steger.Options

Gets the mode.

getNextImage() - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

Gets the next image.

getNormal(double) - Static method in class de.biomedical_imaging.ij.steger.Normal

Gets the normal.

getNumber() - Method in class de.biomedical_imaging.ij.steger.Line

Gets the number.

getOverlapResolution() - Method in class de.biomedical_imaging.ij.steger.Options

Gets the overlap resolution.

getParameters() - Method in class de.biomedical_imaging.ij.steger.Lines_

Returns the parameter which were used for the analysis.

getResponse() - Method in class de.biomedical_imaging.ij.steger.Line

Gets the response.

getSigma() - Method in class de.biomedical_imaging.ij.steger.Options

Gets the sigma.

getStartOrdEndPosition(float, float) - Method in class de.biomedical_imaging.ij.steger.Line

Gets the start ord end position.

getUsedParamters() - Method in class de.biomedical_imaging.ij.steger.LineDetector

Gets the used paramters.

getX() - Method in class de.biomedical_imaging.ij.steger.Junction

Gets the x.

getXCoordinates() - Method in class de.biomedical_imaging.ij.steger.Line

Gets the x coordinates.

getY() - Method in class de.biomedical_imaging.ij.steger.Junction

Gets the y.

getYCoordinates() - Method in class de.biomedical_imaging.ij.steger.Line

Gets the y coordinates.

I

INITIAL_SIZE - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant INITIAL_SIZE.

isCorrect() - Method in class de.biomedical_imaging.ij.steger.Options

Checks if is correct.

isEncapsulated() - Method in class de.biomedical_imaging.ij.steger.Options

Checks if is encapsulated.

isExtend() - Method in class de.biomedical_imaging.ij.steger.Options

Checks if is extend.

isImage() - Method in class de.biomedical_imaging.ij.steger.Options

Checks if is image.

isNonTerminal() - Method in class de.biomedical_imaging.ij.steger.Junction

Checks if is non terminal.

isPostscript() - Method in class de.biomedical_imaging.ij.steger.Options

Checks if is postscript.

isWidth() - Method in class de.biomedical_imaging.ij.steger.Options

Checks if is width.

J

Junction - Class in de.biomedical_imaging.ij.steger

This data structure is used to accumulate junction information.

Junction() - Constructor for class de.biomedical_imaging.ij.steger.Junction

Junctions - Class in de.biomedical_imaging.ij.steger

The Class Junctions.

Junctions(int) - Constructor for class de.biomedical_imaging.ij.steger.Junctions

Instantiates a new junctions.

K

keyPressed(KeyEvent) - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

keyReleased(KeyEvent) - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

keyTyped(KeyEvent) - Method in class de.biomedical_imaging.ij.steger.GenericDialogPlus

L

LINCOOR(int, int, int) - Static method in class de.biomedical_imaging.ij.steger.LinesUtil

Lincoor.

Line - Class in de.biomedical_imaging.ij.steger

This class holds one extracted line.

Line() - Constructor for class de.biomedical_imaging.ij.steger.Line

Instantiates a new line.

Line(float[], float[]) - Constructor for class de.biomedical_imaging.ij.steger.Line

Instantiates a new line.

LINE_WIDTH_COMPENSATION - Static variable in class de.biomedical_imaging.ij.steger.Width

The Constant LINE_WIDTH_COMPENSATION.

LineDetector - Class in de.biomedical_imaging.ij.steger

The Class LineDetector.

LineDetector() - Constructor for class de.biomedical_imaging.ij.steger.LineDetector

Lines - Class in de.biomedical_imaging.ij.steger

The Class Lines.

Lines(int) - Constructor for class de.biomedical_imaging.ij.steger.Lines

Instantiates a new lines.

Lines_ - Class in de.biomedical_imaging.ij.steger

The Class Lines_.

Lines_() - Constructor for class de.biomedical_imaging.ij.steger.Lines_

Instantiates a new lines.

LinesUtil - Class in de.biomedical_imaging.ij.steger

The Class LinesUtil.

LinesUtil() - Constructor for class de.biomedical_imaging.ij.steger.LinesUtil

LinesUtil.contour_class - Enum in de.biomedical_imaging.ij.steger

The Enum contour_class.

Link - Class in de.biomedical_imaging.ij.steger

The Class Link.

Link() - Constructor for class de.biomedical_imaging.ij.steger.Link

M

makeBinary() - Method in class de.biomedical_imaging.ij.steger.Lines_

Make binary.

MASK_SIZE(double, double) - Static method in class de.biomedical_imaging.ij.steger.LinesUtil

Mask size.

MAX_ANGLE_DIFFERENCE - Static variable in class de.biomedical_imaging.ij.steger.Link

The Constant MAX_ANGLE_DIFFERENCE.

MAX_CONTRAST - Static variable in class de.biomedical_imaging.ij.steger.Width

The Constant MAX_CONTRAST.

MAX_SIZE_MASK_0 - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant MAX_SIZE_MASK_0.

MAX_SIZE_MASK_1 - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant MAX_SIZE_MASK_1.

MAX_SIZE_MASK_2 - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant MAX_SIZE_MASK_2.

MIN_LINE_WIDTH - Static variable in class de.biomedical_imaging.ij.steger.Width

The Constant MIN_LINE_WIDTH.

MODE_DARK - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant MODE_DARK.

MODE_LIGHT - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant MODE_LIGHT.

N

Normal - Class in de.biomedical_imaging.ij.steger

The Class Normal.

Normal() - Constructor for class de.biomedical_imaging.ij.steger.Normal

O

Offset - Class in de.biomedical_imaging.ij.steger

The Class Offset.

Offset() - Constructor for class de.biomedical_imaging.ij.steger.Offset

Options - Class in de.biomedical_imaging.ij.steger

The Class Options.

Options(double, double, double, int, double, double, boolean, boolean, boolean, boolean, boolean, boolean, OverlapOption) - Constructor for class de.biomedical_imaging.ij.steger.Options

Instantiates a new options.

OverlapOption - Enum in de.biomedical_imaging.ij.steger

Algorithm options for OverlapResolver choices.

OverlapResolver - Interface in de.biomedical_imaging.ij.steger

Algorithm for resolving overlap between lines.

P

phi2(double, double) - Method in class de.biomedical_imaging.ij.steger.Convol

Phi 2.

Position - Class in de.biomedical_imaging.ij.steger

The Class Position.

Position() - Constructor for class de.biomedical_imaging.ij.steger.Position

R

REALLOC_FACTOR - Static variable in class de.biomedical_imaging.ij.steger.LinesUtil

The Constant REALLOC_FACTOR.

Region - Class in de.biomedical_imaging.ij.steger

The Class Region.

Region() - Constructor for class de.biomedical_imaging.ij.steger.Region

ResetToDefaultListener - Class in de.biomedical_imaging.ij.steger

The listener interface for receiving resetToDefault events.

ResetToDefaultListener(GenericDialogPlus) - Constructor for class de.biomedical_imaging.ij.steger.ResetToDefaultListener

Instantiates a new reset to default listener.

resolve(Lines, Junctions) - Method in class de.biomedical_imaging.ij.steger.AbstractOverlapResolver

resolve(Lines, Junctions) - Method in interface de.biomedical_imaging.ij.steger.OverlapResolver

Given a set of lines and junctions, resolve any overlapping lines as necessary.

resolve(Lines, Junctions, boolean) - Method in interface de.biomedical_imaging.ij.steger.OverlapResolver

As OverlapResolver.resolve(Lines, Junctions) with an option to output resolution information.

resolve(Lines, Junctions, boolean) - Method in class de.biomedical_imaging.ij.steger.SlopeOverlapResolver

run(ImageProcessor) - Method in class de.biomedical_imaging.ij.steger.Lines_

S

setContourClass(LinesUtil.contour_class) - Method in class de.biomedical_imaging.ij.steger.Line

Sets the contour class.

setCorrect(boolean) - Method in class de.biomedical_imaging.ij.steger.Options

Sets the correct.

setEncapsulated(boolean) - Method in class de.biomedical_imaging.ij.steger.Options

Sets the encapsulated.

setExtend(boolean) - Method in class de.biomedical_imaging.ij.steger.Options

Sets the extend.

setFrame(int) - Method in class de.biomedical_imaging.ij.steger.Line

Sets the frame.

setHigh(double) - Method in class de.biomedical_imaging.ij.steger.Options

Sets the high.

setImage(boolean) - Method in class de.biomedical_imaging.ij.steger.Options

Sets the image.

setLow(double) - Method in class de.biomedical_imaging.ij.steger.Options

Sets the low.

setmaxLength(double) - Method in class de.biomedical_imaging.ij.steger.Options

Sets the max length.

setminLength(double) - Method in class de.biomedical_imaging.ij.steger.Options

Sets the min length.

setMode(int) - Method in class de.biomedical_imaging.ij.steger.Options

Sets the mode.

setNPasses(int) - Method in class de.biomedical_imaging.ij.steger.Lines_

setOverlapResolution(OverlapOption) - Method in class de.biomedical_imaging.ij.steger.Options

Sets the overlap resolution.

setPostscript(boolean) - Method in class de.biomedical_imaging.ij.steger.Options

Sets the postscript.

setSigma(double) - Method in class de.biomedical_imaging.ij.steger.Options

Sets the sigma.

setup(String, ImagePlus) - Method in class de.biomedical_imaging.ij.steger.Lines_

setWidth(boolean) - Method in class de.biomedical_imaging.ij.steger.Options

Sets the width.

showDialog(ImagePlus, String, PlugInFilterRunner) - Method in class de.biomedical_imaging.ij.steger.Lines_

SlopeOverlapResolver - Class in de.biomedical_imaging.ij.steger

Resolve overlap between lines by selecting the fragment with the closest matching slope (which is really just trying to preserve straightness - implying that a straight passover is more likely than two overlapping turns).

SlopeOverlapResolver() - Constructor for class de.biomedical_imaging.ij.steger.SlopeOverlapResolver

solve_linear(double, double, MutableDouble, MutableInt) - Method in class de.biomedical_imaging.ij.steger.Position

Solve the linear equation a*x+b=0 and return the result in t and the number of solutions in num.

T

Threshold - Class in de.biomedical_imaging.ij.steger

The Class Threshold.

Threshold() - Constructor for class de.biomedical_imaging.ij.steger.Threshold

V

valueOf(String) - Static method in enum de.biomedical_imaging.ij.steger.LinesUtil.contour_class

Returns the enum constant of this type with the specified name.

valueOf(String) - Static method in enum de.biomedical_imaging.ij.steger.OverlapOption

Returns the enum constant of this type with the specified name.

values() - Static method in enum de.biomedical_imaging.ij.steger.LinesUtil.contour_class

Returns an array containing the constants of this enum type, in the order they are declared.

values() - Static method in enum de.biomedical_imaging.ij.steger.OverlapOption

Returns an array containing the constants of this enum type, in the order they are declared.

W

Width - Class in de.biomedical_imaging.ij.steger

The Class Width.

Width() - Constructor for class de.biomedical_imaging.ij.steger.Width

windowIDs - Variable in class de.biomedical_imaging.ij.steger.GenericDialogPlus

The window I ds.

windowTitles - Variable in class de.biomedical_imaging.ij.steger.GenericDialogPlus

The window titles.

X

x - Variable in class de.biomedical_imaging.ij.steger.Offset

The y.

Y

y - Variable in class de.biomedical_imaging.ij.steger.Offset

The y.

A B C D E G I J K L M N O P R S T V W X Y