Module sc.fiji.filamentdetector

Package sc.fiji.filamentdetector.model

Class Filament

java.lang.Object

sc.fiji.filamentdetector.model.Filament

All Implemented Interfaces:

Comparable<Filament>

public class Filament
extends Object
implements Comparable<Filament>

Field Summary

Fields

Modifier and Type	Field	Description
static Color	DEFAULT_COLOR
static Comparator<Filament>	frameComparator
static int	xIndex
static int	yIndex

Constructor Summary

Constructors

Constructor	Description
Filament(double[] x, double[] y, int frame)
Filament(float[] x, float[] y, int frame)
Filament(List<net.imglib2.RealPoint> points, int frame)

Method Summary

Modifier and Type	Method	Description
int	compareTo(Filament filament)
Filament	copy()
double	distanceFromCenter(Filament filament)
double[]	getBoundingBox()
Color	getColor()
String	getColorAsHex()
List<Double>	getEndTip()
double[]	getEndTipAsArray()
net.imglib2.RealPoint	getFirstPoint()
int	getFrame()
int	getId()
List<Double>	getIntensities(org.scijava.Context context, net.imagej.display.ImageDisplay imd, double channel, double width)
double[]	getIntensitiesAsArray(org.scijava.Context context, net.imagej.display.ImageDisplay imd, double channel, double width)
net.imglib2.RealPoint	getLastPoint()
double	getLength()
double[]	getLengths()
ij.gui.Roi	getRoi()
double	getSinuosity()
int	getSize()
List<Double>	getStartTip()
double[]	getStartTipAsArray()
double	getTipLength()
double[]	getTips()
double[]	getXCoordinates()
float[]	getXCoordinatesAsFloat()
double[]	getYCoordinates()
float[]	getYCoordinatesAsFloat()
String	info()
boolean	insideBbox(double[] bbox)
void	reverseCoordinates()
void	setColor(Color color)
Filament	simplify(double toleranceDistance)
String	toString()

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Detail

DEFAULT_COLOR

public static Color DEFAULT_COLOR

xIndex

public static int xIndex

yIndex

public static int yIndex

frameComparator

public static final Comparator<Filament> frameComparator

Constructor Detail

Filament

public Filament(List<net.imglib2.RealPoint> points,
                int frame)

Filament

public Filament(double[] x,
                double[] y,
                int frame)

Filament

public Filament(float[] x,
                float[] y,
                int frame)

Method Detail

getXCoordinates

public double[] getXCoordinates()

getYCoordinates

public double[] getYCoordinates()

getXCoordinatesAsFloat

public float[] getXCoordinatesAsFloat()

getYCoordinatesAsFloat

public float[] getYCoordinatesAsFloat()

getFrame

public int getFrame()

getId

public int getId()

getSize

public int getSize()

getFirstPoint

public net.imglib2.RealPoint getFirstPoint()

getLastPoint

public net.imglib2.RealPoint getLastPoint()

getTipLength

public double getTipLength()

getLength

public double getLength()

getLengths

public double[] getLengths()

getSinuosity

public double getSinuosity()

getBoundingBox

public double[] getBoundingBox()

toString

public String toString()

Overrides:

toString in class Object

info

public String info()

simplify

public Filament simplify(double toleranceDistance)

compareTo

public int compareTo(Filament filament)

Specified by:

compareTo in interface Comparable<Filament>

getColor

public Color getColor()

getColorAsHex

public String getColorAsHex()

setColor

public void setColor(Color color)

getTips

public double[] getTips()

reverseCoordinates

public void reverseCoordinates()

copy

public Filament copy()

distanceFromCenter

public double distanceFromCenter(Filament filament)

getRoi

public ij.gui.Roi getRoi()

getStartTip

public List<Double> getStartTip()

getEndTip

public List<Double> getEndTip()

getStartTipAsArray

public double[] getStartTipAsArray()

getEndTipAsArray

public double[] getEndTipAsArray()

getIntensities

public List<Double> getIntensities(org.scijava.Context context,
                                   net.imagej.display.ImageDisplay imd,
                                   double channel,
                                   double width)

getIntensitiesAsArray

public double[] getIntensitiesAsArray(org.scijava.Context context,
                                      net.imagej.display.ImageDisplay imd,
                                      double channel,
                                      double width)

insideBbox

public boolean insideBbox(double[] bbox)