Package sc.fiji.snt.analysis

Class PeripathDetector.Detection

java.lang.Object

sc.fiji.snt.analysis.PeripathDetector.Detection

Enclosing class:

PeripathDetector

public static final class PeripathDetector.Detection
extends Object

One detected maximum (varicosity, spine, punctum, etc.).

Field Summary

Fields

Modifier and Type	Field	Description
final double	distanceFromSkeleton	Distance from the path skeleton at the detection point (physical units)
final double	intensity	Intensity at the maximum in the detection image
final int	nodeIndex	Index of the nearest node on the associated path
final Path	path	The path this detection is associated with
final double	x	X-coordinate of the detection in real-world units
final double	y	Y-coordinate of the detection in real-world units
final double	z	Z-coordinate of the detection in real-world units

Method Summary

Modifier and Type	Method	Description
PointInImage	toSNTPoint()	Returns this detection as an SNTPoint.
String	toString()
double[]	xyzct()	Returns the XYZCT coordinates for bookmark/ROI integration.

Methods inherited from class java.lang.Object

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

Field Details

x

public final double x

X-coordinate of the detection in real-world units

y

public final double y

Y-coordinate of the detection in real-world units

z

public final double z

Z-coordinate of the detection in real-world units

intensity

public final double intensity

Intensity at the maximum in the detection image

path

public final Path path

The path this detection is associated with

nodeIndex

public final int nodeIndex

Index of the nearest node on the associated path

distanceFromSkeleton

public final double distanceFromSkeleton

Distance from the path skeleton at the detection point (physical units)

Method Details

toSNTPoint

public PointInImage toSNTPoint()

Returns this detection as an SNTPoint.

Returns:

a new PointInImage at this detection's coordinates

xyzct

public double[] xyzct()

Returns the XYZCT coordinates for bookmark/ROI integration. X, Y, Z are in pixel (uncalibrated) coordinates; C and T are 1-based indices from the associated path.

Returns:

double[5]: {xPixel, yPixel, zPixel, channel, frame}

toString

public String toString()

Overrides:

toString in class Object