Uses of Interface
sc.fiji.snt.util.SNTPoint

Packages that use SNTPoint

Package	Description
sc.fiji.snt	SNT core classes
sc.fiji.snt.analysis	Analysis of Trees.
sc.fiji.snt.annotation	Classes handling neuropil annotations and atlases metadata.
sc.fiji.snt.gui	Customizations and commands for SNT's GUI.
sc.fiji.snt.seed
sc.fiji.snt.util	Miscellaneous SNT utilities, including classes defining reconstruction nodes.
sc.fiji.snt.viewer	Visualization of reconstructions

Uses of SNTPoint in sc.fiji.snt

Classes in sc.fiji.snt that implement SNTPoint

Modifier and Type	Class	Description
static class	Path.PathNode	Enhanced PointInImage that stores all node-specific properties.

Methods in sc.fiji.snt that return types with arguments of type SNTPoint

Modifier and Type	Method	Description
List<SNTPoint>	BookmarkManager.getPixelPositions(boolean onlySelectedRows)	Returns a list of points representing the bookmarks.
List<SNTPoint>	BookmarkManager.getPositions(boolean onlySelectedRows)	Returns a list of points representing the bookmarks.

Methods in sc.fiji.snt with parameters of type SNTPoint

Modifier and Type	Method	Description
Path	SNT.autoTrace(SNTPoint start, SNTPoint end, PointInImage forkPoint)	Automatically traces a path from a point A to a point B.
Path	SNT.autoTrace(SNTPoint start, SNTPoint end, PointInImage forkPoint, boolean headless)	Automatically traces a path from a point A to a point B.
void	Path.insertNode(int index, SNTPoint point)	Inserts a node at the specified position.

Method parameters in sc.fiji.snt with type arguments of type SNTPoint

Modifier and Type	Method	Description
void	BookmarkManager.add(String label, List<SNTPoint> locations, int channel, int frame)	Adds multiple bookmarks with the specified label and locations.
Path	SNT.autoTrace(List<SNTPoint> pointList, PointInImage forkPoint)	Automatically traces a path from a list of points and adds it to the active PathAndFillManager instance.
Path	SNT.autoTrace(List<SNTPoint> pointList, PointInImage forkPoint, boolean headless)	Automatically traces a path from a point A to a point B.

Constructors in sc.fiji.snt with parameters of type SNTPoint

Modifier	Constructor	Description
	PathNode(SNTPoint point)

Uses of SNTPoint in sc.fiji.snt.analysis

Fields in sc.fiji.snt.analysis with type parameters of type SNTPoint

Modifier and Type	Field	Description
protected final Collection<? extends SNTPoint>	AbstractConvexHull.points

Methods in sc.fiji.snt.analysis that return types with arguments of type SNTPoint

Modifier and Type	Method	Description
Collection<? extends SNTPoint>	NodeColorMapper.getNodes()	Gets the collection of nodes being mapped.
Map<org.scijava.util.ColorRGB,List<SNTPoint>>	NodeColorMapper.getNodesByColor()

Method parameters in sc.fiji.snt.analysis with type arguments of type SNTPoint

Modifier and Type	Method	Description
static PCAnalyzer.PrincipalAxis[]	PCAnalyzer.getPrincipalAxes(Collection<? extends SNTPoint> points)	Computes the principal axes for a collection of SNTPoints.

Uses of SNTPoint in sc.fiji.snt.annotation

Methods in sc.fiji.snt.annotation that return SNTPoint

Modifier and Type	Method	Description
static SNTPoint	VFBUtils.brainBarycentre(String templateBrain)	Returns the spatial centroid of an adult Drosophila template brain.
static SNTPoint	ZBAtlasUtils.brainBarycentre()	Returns the spatial centroid of the template brain.
static SNTPoint	AllenUtils.brainCenter()	Returns the spatial centroid of the Allen CCF.

Methods in sc.fiji.snt.annotation with parameters of type SNTPoint

Modifier and Type	Method	Description
static boolean	AllenUtils.isLeftHemisphere(SNTPoint point)	Checks the hemisphere a reconstruction node belongs to.

Uses of SNTPoint in sc.fiji.snt.gui

Methods in sc.fiji.snt.gui that return SNTPoint

Modifier and Type	Method	Description
SNTPoint	GuiUtils.getCoordinates(String promptMsg, String promptTitle, SNTPoint defaultValue, int decimalPlaces)
SNTPoint	GuiUtils.getCoordinatesInternal(String promptMsg, String promptTitle, SNTPoint defaultValue, String[] labels, int decimalPlaces)

Methods in sc.fiji.snt.gui with parameters of type SNTPoint

Modifier and Type	Method	Description
SNTPoint	GuiUtils.getCoordinates(String promptMsg, String promptTitle, SNTPoint defaultValue, int decimalPlaces)
SNTPoint	GuiUtils.getCoordinatesInternal(String promptMsg, String promptTitle, SNTPoint defaultValue, String[] labels, int decimalPlaces)

Uses of SNTPoint in sc.fiji.snt.seed

Classes in sc.fiji.snt.seed that implement SNTPoint

Modifier and Type	Class	Description
final class	SeedPoint	Immutable candidate seed point used to bootstrap auto-tracing or as a visualization aid for the output of upstream point detectors (e.g., deep-learning probability maps + local-max suppression).

Uses of SNTPoint in sc.fiji.snt.util

Classes in sc.fiji.snt.util that implement SNTPoint

Modifier and Type	Class	Description
class	PointInCanvas	Defines a Point in a tracing canvas in pixel coordinates.
class	PointInImage	Defines a Point in an image, a node of a traced Path.
class	ShollPoint	Convenience flavor of PointInImage defining 2D/3D points for Sholl Analysis.
class	SWCPoint	Defines a node in an SWC reconstruction.

Methods in sc.fiji.snt.util that return SNTPoint

Modifier and Type	Method	Description
SNTPoint	BoundingBox.getCentroid()

Methods in sc.fiji.snt.util that return types with arguments of type SNTPoint

Modifier and Type	Method	Description
List<SNTPoint>	PointDeduplicator.run()	Runs the greedy NMS.

Methods in sc.fiji.snt.util with parameters of type SNTPoint

Modifier and Type	Method	Description
boolean	BoundingBox.contains(SNTPoint point)
boolean	BoundingBox.contains2D(SNTPoint point)

Method parameters in sc.fiji.snt.util with type arguments of type SNTPoint

Modifier and Type	Method	Description
void	BoundingBox.append(Iterator<? extends SNTPoint> iterator)	Computes the bounding box of the specified point cloud and appends it to this bounding box, resizing it as needed.
static PointInImage	SNTPoint.average(Collection<? extends SNTPoint> points)	Computes the average position of a collection of SNTPoints.
void	BoundingBox.compute(Iterator<? extends SNTPoint> iterator)	Computes a new positioning so that this box encloses the specified point cloud.

Constructor parameters in sc.fiji.snt.util with type arguments of type SNTPoint

Modifier	Constructor	Description
	BoundingBox(Collection<? extends SNTPoint> points)	Computes a bounding box from a point cloud.
	PointDeduplicator(List<? extends SNTPoint> points, double[] scores, double mergingDistance)	Creates a new deduplicator.

Uses of SNTPoint in sc.fiji.snt.viewer

Methods in sc.fiji.snt.viewer that return SNTPoint

Modifier and Type	Method	Description
SNTPoint	Annotation3D.getBarycentre()	Returns the center of this annotation bounding box.
SNTPoint	OBJMesh.getCentroid(String hemihalf)	Returns the spatial centroid of the specified (hemi)mesh.

Methods in sc.fiji.snt.viewer that return types with arguments of type SNTPoint

Modifier and Type	Method	Description
Collection<? extends SNTPoint>	OBJMesh.getVertices()	Returns the mesh vertices.
Collection<? extends SNTPoint>	OBJMesh.getVertices(String hemihalf)	Returns the mesh vertices.

Methods in sc.fiji.snt.viewer with parameters of type SNTPoint

Modifier and Type	Method	Description
void	Bvv.AnnotationOverlay.addAnnotation(SNTPoint p, float radius, Color color)	Add a single annotation.
Annotation3D	Viewer3D.annotatePlane(SNTPoint origin, SNTPoint originOpposite, String label)
Annotation3D	Viewer3D.annotatePoint(SNTPoint point, String label)	Adds a highlighting point annotation to this viewer.
Annotation3D	Viewer3D.annotatePoint(SNTPoint node, String label, String color, float size)	Adds a highlighting point annotation to this viewer.
double	OBJMesh.getAngleWithLocalDirection(SNTPoint point, double[] direction, String hemiHalf, int neighborCount)	Computes the angle between a direction vector and the local mesh direction at a point.
double[]	OBJMesh.getLocalDirection(SNTPoint point, String hemiHalf, int neighborCount)	Computes the local direction of the mesh at a specific point using nearest neighbor analysis.
void	OBJMesh.translate(SNTPoint offset)	Translates the vertices of this mesh by the specified offset.
void	Viewer3D.translate(Collection<String> treeLabels, SNTPoint offset)	Translates the specified collection of Trees.
void	Viewer3D.translate(Tree tree, SNTPoint offset)	Translates the specified Tree.

Method parameters in sc.fiji.snt.viewer with type arguments of type SNTPoint

Modifier and Type	Method	Description
void	Bvv.AnnotationOverlay.addAnnotations(Collection<SNTPoint> points, float radius, Color color)	Add annotations to the current list.
void	Viewer2D.addNodes(Collection<SNTPoint> points, String color, String label)
void	Viewer2D.addNodes(Map<org.scijava.util.ColorRGB,List<SNTPoint>> coloredNodes)
Annotation3D	Viewer3D.annotateLine(Collection<? extends SNTPoint> points, String label)	Adds a line annotation to this viewer.
Annotation3D	Viewer3D.annotatePoints(Collection<? extends SNTPoint> points, String label)	Adds a scatter (point cloud) annotation to this viewer.
Annotation3D	Viewer3D.annotateSurface(Collection<? extends SNTPoint> points, String label)
Annotation3D	Viewer3D.annotateSurface(Collection<? extends SNTPoint> points, String label, boolean computeVolume)	Computes a convex hull from a collection of points and adds it to the scene as an annotation.
void	Bvv.AnnotationOverlay.setAnnotations(Collection<SNTPoint> points, float radius, Color color)	Replace the current annotations with the provided list.

Constructors in sc.fiji.snt.viewer with parameters of type SNTPoint

Modifier	Constructor	Description
protected	Annotation3D(Viewer3D viewer, SNTPoint point)

Constructor parameters in sc.fiji.snt.viewer with type arguments of type SNTPoint

Modifier	Constructor	Description
protected	Annotation3D(Viewer3D viewer, Collection<? extends SNTPoint> points, int type)