| Name | Description | Type | Package | Framework |
| AbstractOffscreenThread | To be used in combination with the AbstractRepaintThread, as a thread to create graphics offscreen. | Class | ini.trakem2.display | Fiji |
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| AbstractOffscreenThread .RepaintProperties | | Interface | ini.trakem2.display.AbstractOffscreenThread | Fiji |
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| AbstractRepaintThread | | Class | ini.trakem2.display | Fiji |
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| AddARGBComposite | | Class | ini.trakem2.display.graphics | Fiji |
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| AffineTransformMode | | Class | ini.trakem2.display | Fiji |
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| AreaContainer | | Interface | ini.trakem2.display | Fiji |
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| AreaList | A list of brush painted areas similar to a set of labelfields in Amira. | Class | ini.trakem2.display | Fiji |
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| AreaTree | | Class | ini.trakem2.display | Fiji |
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| AreaTree .AreaNode | | Class | ini.trakem2.display.AreaTree | Fiji |
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| AreaWrapper | | Class | ini.trakem2.display | Fiji |
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| AreaWrapper .PaintParameters | | Class | ini.trakem2.display.AreaWrapper | Fiji |
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| Ball | | Class | ini.trakem2.display | Fiji |
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| Bucket | A Bucket is a subarea of the Layer area, which contains either other Buckets or a map of stack_index vs. | Class | ini.trakem2.display | Fiji |
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| Bucketable | | Interface | ini.trakem2.display | Fiji |
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| Channel | | Class | ini.trakem2.display | Fiji |
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| ContrastAdjustmentMode | | Class | ini.trakem2.display | Fiji |
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| ControlClickBehavior | A class to provide the behavior on control-clicking oncontent in the 3D viewer. | Class | ini.trakem2.display.d3d | Fiji |
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| Coordinate | | Class | ini.trakem2.display | Fiji |
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| DefaultGraphicsSource | Handles default mode, i. | Class | ini.trakem2.display.graphics | Fiji |
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| DefaultMode | | Class | ini.trakem2.display | Fiji |
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| DifferenceARGBComposite | | Class | ini.trakem2.display.graphics | Fiji |
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| Display | A Display is a class to show a Layer and enable mouse and keyboard manipulation of all its components. | Class | ini.trakem2.display | Fiji |
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| Display3D | One Display3D instance for each LayerSet (maximum). | Class | ini.trakem2.display | Fiji |
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| Display3D .VectorStringContent | | Class | ini.trakem2.display.Display3D | Fiji |
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| Display3DGUI | | Class | ini.trakem2.display.d3d | Fiji |
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| Displayable | The class that any element to be drawn on a Display must extend. | Class | ini.trakem2.display | Fiji |
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| Displayable .DataPackage | | Class | ini.trakem2.display.Displayable | Fiji |
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| Displayable .DoEdit | For any Displayable data, including: title, visible, locked, color, alpha, and a 'data' type which includes the actual data (points, areas, etc. | Class | ini.trakem2.display.Displayable | Fiji |
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| Displayable .DoEdits | | Class | ini.trakem2.display.Displayable | Fiji |
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| Displayable .DoTransforms | | Class | ini.trakem2.display.Displayable | Fiji |
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| DisplayableChooser | A class to be used when a click to select Displayable objects on the Display detects that there are more than one under the mouse cursor. | Class | ini.trakem2.display | Fiji |
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| DisplayablePanel | | Class | ini.trakem2.display | Fiji |
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| DisplayCanvas | | Class | ini.trakem2.display | Fiji |
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| DisplayNavigator | | Class | ini.trakem2.display | Fiji |
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| Dissector | Each label is simply a cross marker with a number attached; labels are grouped; each member label of the group has the same number. | Class | ini.trakem2.display | Fiji |
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| DLabel | This class is named funny to avoid confusion with java. | Class | ini.trakem2.display | Fiji |
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| DoStep | | Interface | ini.trakem2.display | Fiji |
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| FakeImagePlus | Need a non-null ImagePlus for the ImageCanvas, even if fake. | Class | ini.trakem2.display | Fiji |
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| FakeImageWindow | A class to prevent ROIs from failing. | Class | ini.trakem2.display | Fiji |
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| FreeHandProfile | | Class | ini.trakem2.display | Fiji |
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| GraphicsSource | | Interface | ini.trakem2.display.graphics | Fiji |
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| GroupingMode | | Class | ini.trakem2.display | Fiji |
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| GroupingMode .PatchRange | | Class | ini.trakem2.display.GroupingMode | Fiji |
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| GroupingMode .ScreenPatchRange | | Class | ini.trakem2.display.GroupingMode | Fiji |
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| ImageData | | Interface | ini.trakem2.display | Fiji |
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| ImageJCommandListener | Intercept ImageJ menu commands if the current active image is a FakeImagePlus (from a ini. | Class | ini.trakem2.display | Fiji |
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| InspectPatchTrianglesMode | A view-only mode that shows, using LayerSet. | Class | ini.trakem2.display.inspect | Fiji |
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| Layer | | Class | ini.trakem2.display | Fiji |
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| Layer .DoMoveDisplayable | | Class | ini.trakem2.display.Layer | Fiji |
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| LayerPanel | | Class | ini.trakem2.display | Fiji |
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| LayerSet | A LayerSet is a container for a list of Layer. | Class | ini.trakem2.display | Fiji |
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| LayerSet .DoChangeTrees | Records the state of the LayerSet. | Class | ini.trakem2.display.LayerSet | Fiji |
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| LayerSet .DoMoveZDisplayable | | Class | ini.trakem2.display.LayerSet | Fiji |
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| Line3D | By definition, only ZDisplayable objects may implement Line3D. | Interface | ini.trakem2.display | Fiji |
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| ManualAlignMode | | Class | ini.trakem2.display | Fiji |
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| MipMapImage | A MipMap is a container for an Image and its corresponding inverse x/y scale relative to an original Image | Class | ini.trakem2.display | Fiji |
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| Mode | | Interface | ini.trakem2.display | Fiji |
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| MultiplyARGBComposite | | Class | ini.trakem2.display.graphics | Fiji |
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| Node | Can only have one parent, so there aren't cyclic graphs. | Class | ini.trakem2.display | Fiji |
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| Node .BranchAndEndNodeIterator | | Class | ini.trakem2.display.Node | Fiji |
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| Node .BranchNodeIterator | | Class | ini.trakem2.display.Node | Fiji |
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| Node .BreadthFirstSubtreeIterator | For a given starting node, iterates over the complete set of children nodes, recursively and breadth-first. | Class | ini.trakem2.display.Node | Fiji |
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| Node .EndNodeIterator | | Class | ini.trakem2.display.Node | Fiji |
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| Node .FilteredIterator | | Class | ini.trakem2.display.Node | Fiji |
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| Node .NodeCollection | Read-only Collection with a very expensive size(). | Class | ini.trakem2.display.Node | Fiji |
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| Node .NodeIterator | Stateful abstract Node iterator. | Class | ini.trakem2.display.Node | Fiji |
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| Node .Operation | An operation to be applied to a specific Node. | Interface | ini.trakem2.display.Node | Fiji |
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| Node .SlabIterator | For a given starting node, iterates all the way to the next end node or branch node, inclusive. | Class | ini.trakem2.display.Node | Fiji |
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| Node .SubtreeIterator | | Class | ini.trakem2.display.Node | Fiji |
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| NonLinearTransformMode | | Class | ini.trakem2.display | Fiji |
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| Overlay | | Class | ini.trakem2.display | Fiji |
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| Paintable | | Interface | ini.trakem2.display | Fiji |
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| Patch | | Class | ini.trakem2.display | Fiji |
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| Patch .PatchImage | | Class | ini.trakem2.display.Patch | Fiji |
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| Patch .TransformProperties | | Class | ini.trakem2.display.Patch | Fiji |
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| Pipe | | Class | ini.trakem2.display | Fiji |
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| Polyline | A sequence of points that make multiple chained line segments. | Class | ini.trakem2.display | Fiji |
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| Profile | A class to be a user-outlined profile over an image, which is painted with a particular color and also holds an associated text label. | Class | ini.trakem2.display | Fiji |
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| Region | | Class | ini.trakem2.display | Fiji |
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| RollingPanel | | Class | ini.trakem2.display | Fiji |
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| Selection | Keeps track of selected objects and mediates their transformation. | Class | ini.trakem2.display | Fiji |
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| ShapeProxy | | Class | ini.trakem2.display.inspect | Fiji |
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| SnapshotPanel | | Class | ini.trakem2.display | Fiji |
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| Stack | | Class | ini.trakem2.display | Fiji |
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| SubtractARGBComposite | | Class | ini.trakem2.display.graphics | Fiji |
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| Tag | | Class | ini.trakem2.display | Fiji |
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| Taggable | | Interface | ini.trakem2.display | Fiji |
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| TestGraphicsSource | | Class | ini.trakem2.display.graphics | Fiji |
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| TransformationStep | | Class | ini.trakem2.display | Fiji |
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| Tree | A sequence of points ordered in a set of connected branches. | Class | ini.trakem2.display | Fiji |
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| Tree .MeasurePathDistance | | Class | ini.trakem2.display.Tree | Fiji |
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| Tree .MeshData | One color per vertex. | Class | ini.trakem2.display.Tree | Fiji |
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| TreeConnectorsView | List all connectors whose origins intersect with the given tree. | Class | ini.trakem2.display | Fiji |
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| Treeline | | Class | ini.trakem2.display | Fiji |
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| Treeline .RadiusNode | | Class | ini.trakem2.display.Treeline | Fiji |
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| USHORTPaint | | Class | ini.trakem2.display.paint | Fiji |
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| VectorData | An interface to represent Displayable objects that are not images. | Interface | ini.trakem2.display | Fiji |
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| VectorDataTransform | | Class | ini.trakem2.display | Fiji |
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| YesNoDialog | A modal dialog box with a one line message and "Yes" and "No" buttons. | Class | ini.trakem2.display | Fiji |
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| ZDisplayable | For Pipes and other objects that must be shown in all Layers of a LayerSet. | Class | ini.trakem2.display | Fiji |