| Package | Description |
|---|---|
| sc.fiji.snt |
SNT core classes
|
| sc.fiji.snt.analysis |
Analysis of
Trees. |
| sc.fiji.snt.analysis.graph |
Classes for handling neuronal reconstructions as graphs
|
| sc.fiji.snt.analysis.sholl |
Sholl analysis of Images, pre-sampled data and
Trees. |
| sc.fiji.snt.analysis.sholl.gui |
GUI customizations (image overlays, plots, etc.) required for Sholl Analysis.
|
| sc.fiji.snt.analysis.sholl.math |
Statistical analysis of Sholl data
|
| sc.fiji.snt.analysis.sholl.parsers |
Parsers to retrieve Profiles from multiple sources (2D/3D images, reconstructions, and tables)
|
| 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.hyperpanes |
Classes implementing SNT's XY, ZY, and XZ canvases.
|
| sc.fiji.snt.io |
Classes for importing reconstructions into SNT.
|
| sc.fiji.snt.util |
Miscellaneous SNT utilities, including classes defining reconstruction nodes.
|
| sc.fiji.snt.viewer |
Visualization of reconstructions
|
| sc.fiji.snt.viewer.geditor |
| Class and Description |
|---|
| BoundingBox
A BoundingBox contains information (including spatial calibration) of a
tracing canvas bounding box, i.e., the minimum bounding cuboid containing all
nodes (
SNTPoints) of a reconstructed structure. |
| PointInCanvas
Defines a Point in a tracing canvas in pixel coordinates.
|
| PointInImage
Defines a Point in an image, a node of a traced
Path. |
| SNTPoint
Classes extend this interface implement a point in a 3D space, always using
real world coordinates.
|
| SWCPoint
Defines a node in an SWC reconstruction.
|
| Class and Description |
|---|
| PointInImage
Defines a Point in an image, a node of a traced
Path. |
| SNTPoint
Classes extend this interface implement a point in a 3D space, always using
real world coordinates.
|
| SWCPoint
Defines a node in an SWC reconstruction.
|
| Class and Description |
|---|
| SWCPoint
Defines a node in an SWC reconstruction.
|
| Class and Description |
|---|
| ShollPoint
Convenience flavor of
PointInImage defining 2D/3D points for Sholll Analysis. |
| Class and Description |
|---|
| ShollPoint
Convenience flavor of
PointInImage defining 2D/3D points for Sholll Analysis. |
| Class and Description |
|---|
| ShollPoint
Convenience flavor of
PointInImage defining 2D/3D points for Sholll Analysis. |
| Class and Description |
|---|
| PointInImage
Defines a Point in an image, a node of a traced
Path. |
| ShollPoint
Convenience flavor of
PointInImage defining 2D/3D points for Sholll Analysis. |
| Class and Description |
|---|
| SNTPoint
Classes extend this interface implement a point in a 3D space, always using
real world coordinates.
|
| Class and Description |
|---|
| SNTColor
A simple class for handling Colors including the ability to map an AWT Color
to a SWC type integer tag.
|
| Class and Description |
|---|
| BoundingBox
A BoundingBox contains information (including spatial calibration) of a
tracing canvas bounding box, i.e., the minimum bounding cuboid containing all
nodes (
SNTPoints) of a reconstructed structure. |
| PointInCanvas
Defines a Point in a tracing canvas in pixel coordinates.
|
| Class and Description |
|---|
| SWCPoint
Defines a node in an SWC reconstruction.
|
| Class and Description |
|---|
| BoundingBox
A BoundingBox contains information (including spatial calibration) of a
tracing canvas bounding box, i.e., the minimum bounding cuboid containing all
nodes (
SNTPoints) of a reconstructed structure. |
| CircleCursor3D
Iterate the pixels of an oriented circle in 3-space using Bresenham's algorithm, where the
circle is constructed from the unit normal to the circle plane, the center point, and radius.
|
| PointInCanvas
Defines a Point in a tracing canvas in pixel coordinates.
|
| PointInImage
Defines a Point in an image, a node of a traced
Path. |
| ShollPoint
Convenience flavor of
PointInImage defining 2D/3D points for Sholll Analysis. |
| SNTPoint
Classes extend this interface implement a point in a 3D space, always using
real world coordinates.
|
| SWCPoint
Defines a node in an SWC reconstruction.
|
| Class and Description |
|---|
| BoundingBox
A BoundingBox contains information (including spatial calibration) of a
tracing canvas bounding box, i.e., the minimum bounding cuboid containing all
nodes (
SNTPoints) of a reconstructed structure. |
| SNTPoint
Classes extend this interface implement a point in a 3D space, always using
real world coordinates.
|
| Class and Description |
|---|
| SWCPoint
Defines a node in an SWC reconstruction.
|
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