All Classes
| Class | Description |
|---|---|
| AbstractAxon |
Default class for an axon.
|
| AbstractCompartment |
Basic compartment for compartmental model components.
|
| AbstractCorticalConnection |
Abstract class serving as a base for all cortical connections.
|
| AbstractCorticalInput | |
| AbstractCorticalOutput | |
| AbstractCorticalRegion |
Represents a component at the resolution of a cortical region.
|
| AbstractDendrite | |
| AbstractDendrites |
Default class for dendrites.
|
| AbstractEnvironmentDataSource<T extends MguiNumber> |
Serves as a data source updated by a
DynamicModelEnvironment. |
| AbstractGraphEdge |
Abstract representation of a graph edge, connecting two nodes.
|
| AbstractGraphNode |
Abstract representation of a graph node (vertex), with a specific static 3D locations.
|
| AbstractInterfaceObject |
Abstract class which acts as the base class for all "interface" objects; i.e., objects which provide
an interface between user and the underlying model.
|
| AbstractMotorNeuron |
Abstract class for a motor (output) neuron.
|
| AbstractNetwork | |
| AbstractNetworkComponent |
Abstract generic class for neuro model components to inherit.
|
| AbstractNetworkGraph |
A graph which explicitly represents a connected network.
|
| AbstractNetworkGraphConnection |
Represents an edge (i.e., a connection) in a network graph.
|
| AbstractNetworkGraphNode |
Represents a node in a network graph.
|
| AbstractNetworkModel |
Abstract class for all neuronal models to inherit.
|
| AbstractNeuralNet |
Abstract class for all neural net classes to inherit.
|
| AbstractNeuroComponent |
Abstract generic class for neuro model components to inherit.
|
| AbstractNeuron | |
| AbstractNeuronalComponent |
Abstract class for all neuronal components (i.e., components of instances of
Neuron)
to inherit. |
| AbstractProgressUpdater |
An abstract updater with default implementations for all methods
|
| AbstractSensoryNeuron | |
| AbstractSoma | |
| AbstractSynapse | |
| AbstractTreeCellEditor | |
| AbstractTreeTableModel |
An abstract implementation of the TreeTableModel interface, handling
the list of listeners.
|
| AmiraTractLoader | |
| AnalyzeRotateVolume |
Rotate an Analyze volume about a specified axis, by some multiple of 90 degrees.
|
| AnalyzeTransform |
Holds a transform for an Analyze file and provides functions to apply this
transform on a data set.
|
| AnimationWidget | |
| AnimationWidgetVRML | |
| Applet3d | |
| AppletDepth | |
| AppletHull | |
| AppletPatch | |
| arCollections | |
| arComparable | |
| Attr | |
| Attribute<V> |
Class serves as a general-purpose attribute.
|
| AttributeButton | |
| AttributeCellEditor | |
| AttributeCellRenderer | |
| AttributeComparator | |
| AttributeDialogBox |
Non-modal, always-on-top dialog box which allows a user to select an attribute object and modify its attributes.
|
| AttributeEvent |
Represents an event on an
Attribute object. |
| AttributeException |
Represents an exception on an
Attribute object. |
| AttributeList |
Stores a list of
Attribute objects, and provides methods to access and modify them, as well as
set methods to intersect and union with other lists. |
| AttributeListener |
Defines an interface for objects which listen for changes in an
Attribute object. |
| AttributeNode2D | |
| AttributeNodeComparator | |
| AttributeObject |
Interface for objects which specify their attributes using an
AttributeList. |
| AttributeObjectVideoTask |
Represents a video task which modifies an
Attribute. |
| AttributeObjectVideoTaskDialogPanel |
Panel for defining an AttributeObjectTask.
|
| AttributeSelection<V> |
Extends
Attribute to allow a list of options, one or none of which is the current value. |
| AttributeSelectionMap<V> |
Represents an
Attribute with possible values mapped with String keys. |
| AttributeSelectionMap.ComboMode | |
| AttributeTableModel |
Table model designed to display updatable
Attributes. |
| AttributeTreeCellEditor |
Cell editor for an attribute tree node.
|
| AttributeTreeCellRenderer | |
| AttributeTreeNode |
Provides a tree node to display and update an
Attribute. |
| AttributeXMLHandler |
Handles XML events for
Attribute objects. |
| Axes |
A coordinate axes object
|
| Axes3D |
Renders 3D axes on a 3D window.
|
| AxesEvent | |
| AxesListener |
Listener for changes on an Axes3D object
|
| Axon | |
| Bezier3d | |
| BezierToVRML | |
| BiexponentialFunction |
Simplistic bi-exponential representation of population activity in a cortical region, which responds to
input events.
|
| BoolPolygon2DInt | |
| Box3D |
Box in R3 with base point and three orthogonal axis vectors (denoted by S, T, and R, respectively).
|
| Box3DInt | |
| Bspline3d | |
| BufferedRandomAccessFile |
Buffered version of RandomAccessFile.
|
| Build |
Builds an executable file based upon parameters including:
-libdir: library directory
-classpathfile: file containing classpath entries
-initfile: file to init environment
-maxheapsize: max heap size for JVM (default 1000m)
-maxstacksize: max stack size for JVM (default 50m)
|
| ByteOrderedFile |
Extends RandomAccessFile to support byte order.
|
| Camera3D |
Represents a particular camera position in R3, defined by a center of
rotation, line of sight vector, and a distance.
|
| Camera3DLight | |
| Camera3DListener | |
| CameraEvent | |
| CameraEvent.EventType | |
| CaminoCatTask |
Wraps class UnixFunctions.cat, in order to set correct directories from the
Camino environment.
|
| CaminoCopyTask | |
| CaminoEnvironment | |
| CaminoException | |
| CaminoFunctions | |
| CaminoPipelineLoader | |
| CaminoPipelineTree | |
| CaminoPipelineTree.PopupObject | |
| CaminoPipelineWriter | |
| CaminoProcess |
Extends
JavaProcess specifically for Camino processes. |
| CaminoProcessDialogBox | |
| CaminoProcesses | |
| CaminoProcessOptions | |
| CaminoProject | |
| CaminoProjectDialogBox | |
| CaminoProjectLoader | |
| CaminoProjectOptions | |
| CaminoProjectWriter | |
| CaminoProjectXMLHandler | |
| CaminoTask |
Simple port into apps.EntryPoint, which first resets the Camino environment.
|
| CaminoTaskDialogBox | |
| CaminoTaskOptions | |
| CaminoTaskTreeNode | |
| CanvasEvent | |
| CanvasListener | |
| CaretAreaColourInDialogBox | |
| CaretAreaColourInOptions | |
| CaretAreaColourLoader |
A hack to read Caret area colour files.
|
| CaretAreaColourOutDialogBox | |
| CaretAreaColourOutputOptions |
Options for outputting a
DiscreteColourMap as a Caret areacolor file. |
| CaretAreaColourWriter |
Writes a
DiscreteColourMap to a Caret area colour file, which associates colours (RGB) with names. |
| CaretMetricInDialogBox | |
| CaretMetricInOptions | |
| CaretMetricLoader | |
| CaretMetricOptions |
Options for a Caret metric file.
|
| CaretMetricOptionsDialog | |
| CaretPaintInDialogBox | |
| CaretPaintInOptions | |
| CaretPaintLoader |
Loads a Caret Paint file
From Caret site:
tag-version 1
tag-number-of-nodes 71723
tag-number-of-columns 5
tag-title
tag-number-of-paint-names 148
tag-column-name 0 Lobes
tag-column-name 1 Geography
tag-column-name 2 Functional Stuff
tag-column-name 3 Brodmann
tag-column-name 4 Modality
tag-BEGIN-DATA
0 ???
1 SUL
2 DEEP_SUL
...
|
| CaretPaintOptions | Deprecated.
use CaretPaintInOptions or CaretPaintOutOptions
|
| CaretPaintOptionsDialog | Deprecated.
use CaretPaintInDialogBox or CaretPaintOutDialogBox
|
| CaretPaintOutOptions | |
| CaretPaintWriter |
Writes a set of vertex-wise data columns to Caret paint files, binary format version 1.
|
| CaretSurfaceInDialogBox |
Dialog box for inputting a Caret format surface, comprised of "topo" and "coord" files.
|
| CaretSurfaceInfo | |
| CaretSurfaceInOptions |
Options specifying how to read a Caret surface
|
| CaretSurfaceLoader |
Loads a Caret surface from topology and coordinate files, in either binary or ASCII format.
|
| CaretSurfaceOutDialogBox |
Opotions dialog box for a Caret surface write operation.
|
| CaretSurfaceOutOptions | |
| CaretSurfaceWriter |
Writes a mesh to Caret format (two files, topo and coord)
|
| CategoryLayout |
Extends
LineLayout to provide collapsible categories. |
| CategoryLayoutConstraints |
Extension of
|
| CategoryObject | |
| CategoryTitle |
A title for a category using the
CategoryLayout layout. |
| ChangeSectionVideoTask |
Video task which changes the current section, either once or multiple times over an interval.
|
| ChangeSectionVideoTaskDialogPanel |
Dialog panel for a ChangeSectionVideoTask.
|
| Circle2D |
Represents a 2D circle.
|
| Circle2DInt | |
| ClassFunctions |
Set of functions on classes
|
| CleanableObject |
An object that can be cleaned; i.e., for destroyed fields which should be released
|
| Clipboard |
Acts as a clipboard for the current InterfaceSession.
|
| Clipboard.Item | |
| ClipPlane |
Class specifies a clipping region around a plane, with back and front clip distances.
|
| Close | |
| ColorControl | |
| Colormap | |
| Colour | |
| Colour1f | |
| Colour2f | |
| Colour3f | |
| Colour4f | |
| ColourBarOutDialog | |
| ColourButton |
Overrides renderer to colour component regardless of look and feel.
|
| ColourMap |
Abstract class for mapping values (instances of
Comparable) to colours. |
| ColourMapListener | |
| ColourMapLoader |
Base class for loading a colour map from file.
|
| ColourMapXMLHandler |
XML (SAX) handler for reading XML-format colour map files.
|
| Colours | |
| CommandException |
Exception on a command object
|
| CommandFunctions |
Utility class providing functions to interact with the operating system.
|
| CommandFunctions.ProcessState | |
| CommandInstance |
Class which handles command-line arguments and calls specific methods
as implemented by a sub-class.
|
| CommandInterpreter |
Serves as the base class for command-line interpreters which interact with mgui.
|
| CompartmentalComponent |
Base abstract class for all components using a compartmental model.
|
| CompartmentalDendrite |
Represents a dendrite whose activity is determined by the cable model (see Rawl etc.)
and a compartmental discrete (numerical) approximation of its differential functions.
|
| CompartmentalNeuron | |
| CompartmentalSoma | |
| CompartmentEvent |
Basic event for compartments of a compartmental model.
|
| ConnectableNeuron | |
| ConsolidateDirectoriesDialogBox |
Defines parameters for a consolidation of directories into one directory.
|
| ConstrainedRadialRepresentation | |
| Context | |
| ContinuousColourBar |
Component displays a continuous colour map as a horizontal bar portraying
the colour gradient between anchors.
|
| ContinuousColourMap |
Maps colours to values based upon a set of anchors (expressed on the range [0:1]) and an interpolator.
|
| ContinuousColourMapLoader |
Loads a comma-delimited continuous colour map.
|
| ContinuousColourMapWriter |
Writes a comma-delimited continuous colour map.
|
| ConvertRawToPNG |
Read in an rgb raw image and write out a png image
|
| ConvexHullFunctions | |
| CoordAttr | |
| Coordinate3DLayout<V extends AbstractGraphNode,E extends AbstractGraphEdge> |
Layout for graph nodes in 3D, specifying fixed positions in R3.
|
| CoordinateLayout<V extends AbstractGraphNode,E extends AbstractGraphEdge> |
Layout for AbstractGraphNodes, which projects the 3D locations of these nodes onto a given
plane.
|
| CorticalFunction | |
| CorticalHemisphereSet3DInt | |
| CorticalNetwork | |
| CorticalNetworkGraph | |
| CorticalNetworkGraphConnection | |
| CorticalNetworkGraphNode | |
| CorticalNetworkMatrixInDialogBox | |
| CorticalNetworkMatrixInOptions |
Inputs a matrix as a weighted cortical network.
|
| CorticalNetworkMatrixInOptions.Format | |
| CorticalNetworkMatrixLoader |
Reads an ASCII matrix representing a connected network into a cortical network, assigning weights
based upon a specified range (mapped to the continuous range [0.0:1.0]).
|
| CorticalNetworkXMLHandler |
Handler for XML encoding of cortical networks.
|
| CorticalRegion |
Represents a component at the resolution of a cortical region.
|
| CorticalSurfaceSet3DInt |
Representation of a set of cortical surfaces, including grey matter (GM) interfaces with white matter (WM)
and cerebrospinal fluid (CSF).
|
| CorticalThicknessDataTableDialogBox | |
| CorticalThicknessDataTableOptions | |
| CorticalThicknessDialogBox |
Defines a cortical thickness project
|
| CorticalThicknessOptions | |
| CorticalVolume |
A Volume3D-based representation of a cortical region.
|
| CorticalVolume |
A Volume3D-based representation of a cortical region.
|
| CSELogo | |
| Cube | |
| Cube3D |
Represents a 3 dimensional cube object, using a Point3f, two Vector3f's
and a float.
|
| CurveTo | |
| DataBridge<T extends MguiNumber> |
Represents a data bridge, combining an input stream and an output stream.
|
| DataBridgeNamedXY<T extends MguiNumber> | |
| DataBridgeXY<T extends MguiNumber> |
Acts as a data bridge for XY data, where X holds a single value and each Y
channel has an array of values corresponding to that X.
|
| DataBuffer<T extends MguiNumber> |
Represents a data buffer of number type
T. |
| DataConnection |
Specifies a basic JDBC database connection, including:
JDBC driver
URL
Connection name
File location
Login
Password //TODO implement security on this
|
| DataField |
Object to specify a field data type and length.
|
| DataFieldEvent |
Event on a data field
|
| DataFieldEvent.EventCode | |
| DataFieldListener |
Listener on a data field
|
| DataFieldOptions |
Parameters defining a data field.
|
| DataFieldTreeNode |
A tree node specialized for a
DataField object. |
| DataFileInterface | Deprecated.
Use FileLoader and FileWriter classes
|
| DataIndex<T extends java.lang.Comparable<T>> |
Class to index specified fields in a table.
|
| DataInputStream<T extends MguiNumber> |
Represents an input stream of a specific number type.
|
| DataInputStreamListener<T extends MguiNumber> |
Interface for objects which listen to events from an input stream.
|
| DataInputStreamNamedXY<T extends MguiNumber> | |
| DataInputStreamXY<T extends MguiNumber> |
Represents an XY input stream with one X and multiple Y channels.
|
| DataOutputStream<T extends MguiNumber> |
Represents an general output stream in modelGUI, of a specific data type.
|
| DataOutputStreamNamedXY<T extends MguiNumber> |
Represents an XY output stream whose Y channels are named.
|
| DataOutputStreamXY<T extends MguiNumber> |
Represents an XY output stream with one X and multiple Y channels.
|
| DataQuery |
Represents an SQL query.
|
| DataQueryOptions |
Options for a data query
|
| DataRecordSet |
Stores an open connection with a data source based upon an SQL specification.
|
| DataSet |
Interface for objects acting as a data set.
|
| DataSetTreeNode |
A tree node specialized for a
DataSet object. |
| DataSource |
Acts as a port into the JDBC interface.
|
| DataSourceCommands |
Utility for defining a JDBC driver with login and encrypted password.
|
| DataSourceDialogBox |
Dialog box for defining or editing a
DataSource object. |
| DataSourceDialogPanel | |
| DataSourceDriver |
Defines a JDBC driver for a
DataConnection. |
| DataSourceDriverDialogBox |
Dialog box which allows user to set up the data source drivers, i.e., with login, url, and password
information.
|
| DataSourceDriverLoader |
Loader for a data source (JDBC) driver specification file.
|
| DataSourceDriverOptions |
Options which specify a JDBC data source driver.
|
| DataSourceDrivers |
Holds a list of
DataSourceDriver objects. |
| DataSourceDriverWriter |
Writer for a data source (JDBC) driver file.
|
| DataSourceEvent | |
| DataSourceEvent |
Event on an
InterfaceDataSource object. |
| DataSourceException |
An exception on a data source object.
|
| DataSourceFunctions | |
| DataSourceItem |
An item (i.e., table or query) in a
DataSource. |
| DataSourceLinkDialogBox |
Dialog box for specifying a vertex data column link to a data source.
|
| DataSourceLinkOptions |
Options for specifying a vertex data column link to a data source.
|
| DataSourceListDialogPanel |
Panel which queries and lists the available databases in a given environment.
|
| DataSourceListener |
Defines a Listener interface for a DataSource object
|
| DataSourceListener |
Listens to a data source for an emission event.
|
| DataSourceLoader |
Loads a Data Source object.
|
| DataSourceLoader.FileType | |
| DataSourceOptions | |
| DataSourceOutOptions |
Specifies options for writing a Data Source to file.
|
| DataSourceWriter |
Writes a Data Source object to file.
|
| DataSourceWriter.FileType | |
| DataSourceXMLHandler |
XML (SAX) handler for loading XML-format data source files.
|
| DataTable |
General data table object specifying the organization of data into fields.
|
| DataTableDialog |
Dialog box for creating or managing a data table.
|
| DataTableException | |
| DataTableModel |
Class extending AbstractTableModel to act as a model for JTable, and in particular
for use by InterfaceDataTable.
|
| DataTableOptions |
Options for a new data table.
|
| DataTableSet |
Object stores a list of DataTable objects, all representing tables in a single DataSource
|
| DataType |
Holds information about a given data type
|
| DataTypes |
Class to provide functions for testing and comparing data types.
|
| DecayFunction | |
| DefaultGraph |
Default implementation of a Graph in ModelGUI.
|
| DefaultGraphEdge |
Default implementation of a Graph edge.
|
| DefaultGraphFileLoader |
Loads a graph stored in domestic XML format.
|
| DefaultGraphNode |
Default implementation of a Graph in modelGUI.
|
| DefaultIOOptions |
Implements a default IO options object, specifying files and a generic file chooser.
|
| DefaultMatrixFileLoader |
Default implementation of a matrix loader.
|
| DefaultMatrixFileWriter | |
| Dendrite | |
| Dendrites | |
| DialogActionEvent | |
| DialogTool |
Abstract class to be inherited by all tools which operate using a modal dialog box.
|
| DialogToolDialogBox | |
| DiscreteColourMap |
Colour map for discrete 1-to-1 mappings (integers to colours).
|
| DiscreteColourMapInDialogBox | |
| DiscreteColourMapInOptions |
Options for inputting a DiscreteColourMap.
|
| DiscreteColourMapInOptions.Format | |
| DiscreteColourMapLayout |
Layout which displays a discrete colour map as a list of colour boxes, names, and optionally descriptions and
indexes.
|
| DiscreteColourMapLoader |
Loads a discrete colour map from either delimited ASCII or XML.
|
| DiscreteColourMapOutDialogBox | |
| DiscreteColourMapOutOptions |
Options for outputting a DiscreteColourMap.
|
| DiscreteColourMapTable |
Table to display and update a discrete colour map.
|
| DiscreteColourMapWriter |
Writer for discrete colour maps.
|
| DisplayListener | |
| DisplayPanelEvent | |
| DisplayPanelEvent.EventType | |
| DisplayPanelListener |
Interface to listen on changes to an
InterfaceDisplayPanel. |
| DivideAndConquer | |
| DrawingEngine |
Utility class to perform drawing of
Shape2DInt shapes on a
Graphics2D. |
| DTFit | |
| DuffSurfaceHeader | |
| DuffSurfaceLoader | |
| DynamicModel |
Base interface for a dynamic model; specifies methods for getting and setting
model components, sensors, listeners, and environments.
|
| DynamicModelComponent |
Interface which must be implemented by all components of a dynamic model.
|
| DynamicModelEngine |
The main engine class for coordinating a dynamic model.
|
| DynamicModelEnvironment<T extends MguiNumber> |
Interface for a dynamic model's environment.
|
| DynamicModelEnvironmentEvent | |
| DynamicModelEnvironmentInputStream | |
| DynamicModelEnvironmentListener | |
| DynamicModelEnvironmentSensor |
Acts as a sensor for a model environment, which responds to state change events via the
stimulate method. |
| DynamicModelEvent |
Represents a discrete causal event in a dynamic model.
|
| DynamicModelException | |
| DynamicModelException | |
| DynamicModelListener | |
| DynamicModelODEComponent |
Interface for components which solve ordinary differential equations (ODEs).
|
| DynamicModelOutputEvent | |
| DynamicModelStatistics | |
| DynamicModelUpdater |
Interface for a model that updates components as a function of a given timestep.
|
| DynamicPipelineEvent |
Represents an dynamic event on an executing pipeline; i.e., starting, terminating, updating
|
| DynamicPipelineListener |
Specifies a listener which handles dynamic changes to an executing pipeline.
|
| Edge3d | |
| Edge3dPlus | |
| EdgeStack |
This class stores the edges that still need to be processed.
|
| EdgeStackTest | |
| EditDataFieldDialogBox |
Dialog box to define a data field.
|
| EditDataTableDialog |
Interface allowing the user to create a new table, or edit an existing one, with defined fields.
|
| EditQueryDialogBox |
Simple dialog to edit a query.
|
| Ellipse2D |
Represents an ellipse shape.
|
| Ellipse2DInt |
Interface for a
Ellipse2D shape. |
| EndianCorrectInputStream |
EndianCorrectInputStream extends DataInputStream; it will optionally flip
bytes to read little endian data correctly.
|
| EndianCorrectOutputStream |
EndianCorrectOutputStream extends DataOutputStream; it will optionally flip
bytes to write little endian data correctly.
|
| EnergySphere | |
| Engine |
Interface for all "engine" classes; i.e., instantiable classes which hold attributes and do work.
|
| Environment |
Interface to be implemented by all mgui environments.
|
| ExceptionListener | |
| ExceptionListener | |
| ExportDataTableDialogBox |
Dialog box to specify options for exporting data from a data source to an external file format
(e.g., delimited text).
|
| ExportDataTableExcelOptions |
Options for exporting data from a
DataSourceItem to a Microsoft Excel format file. |
| ExportDataTableExcelOptions.Format | |
| ExportDataTableExcelWriter |
Writes data from a data source
DataItem to Microsoft Excel format. |
| ExportDataTableOptions |
Options for exporting data from a data source to an external file format.
|
| ExportDataTableTextOptions |
Options for exporting data from a data source to a delimited text file.
|
| ExportDataTableTextWriter |
Writes data from a data source
DataItem to a delimited text file. |
| ExportDataTableWriter |
Abstract class for extension by writers which export data from a DataSourceItem to an external
format.
|
| FaceMesh |
Maintains a vertex-wise list of faces; i.e., allows to user to quickly obtain a list of the faces
associated with a particular node.
|
| FakeAppletStub |
Fake AppletStub so that an Applet can run as as application
|
| FileButton |
A button which contains a file and file filter, and displays a file browser dialog when pressed
|
| FileLoader |
Base class for all file loader classes.
|
| FileWriter |
Base class for all file writer classes.
|
| FontDialog | |
| FreesurferSurfaceLoader |
Reads a Freesurfer surface file, binary or ASCII format.
|
| FreesurferSurfaceOutputOptions |
Options for a FreesurferSurfaceWriter.
|
| FreesurferSurfaceWriter |
Writes a Freesurfer surface to file, in binary or Ascii format.
|
| FreesurferVertexDataDialogBox |
Extension of
SurfaceDataInputDialogBox specifically for Freesurfer surface
data files. |
| FreesurferVertexDataInOptions |
Options for FreesurferVertexDataLoader.
|
| FreesurferVertexDataInOptions.Format | |
| FreesurferVertexDataLoader |
Loads a Freesurfer surface data file.
|
| FSLSurfaceLoader | |
| FSLVolumeLoader |
Loader for a FSL-style volume file (mgh/mgz).
|
| FSLVolumeMetadata |
Metadata for a FSL-style volume file (mgh/mgz).
|
| Function |
Abstract class for all model functions.
|
| GeometryFunctions |
Utility class providing a library of common geometric functions.
|
| GeometryFunctions.AnglePoint2D | |
| GeometryFunctions.Point3fComp | |
| GiftiInputOptions |
Options specific for Gifti surfaces.
|
| GiftiOutputOptions |
Options for writing a surface to a Gifti format file.
|
| GiftiOutputOptions.ByteOrder | |
| GiftiOutputOptions.ColumnFormat | |
| GiftiOutputOptions.GiftiEncoding | |
| GiftiSurfaceInDialogBox |
Dialog box for inputting a GIFTI-format surface.
|
| GiftiSurfaceLoader |
Loads an XML-format GIFTI file.
|
| GiftiSurfaceOutDialogBox |
Opotions dialog box for a Gifti surface write operation.
|
| GiftiSurfaceWriter |
Writes a surface to Gifti format.
|
| GiftiXMLHandler |
XML handler for GIFTI format surface files.
|
| GiftWrap | |
| GiftWrapQT | |
| Graph2D |
Represents a graph as a 2D geometric shape.
|
| Graph2DInt |
Graph shape represented in R2.
|
| Graph2DLayout<V extends AbstractGraphNode,E extends AbstractGraphEdge> |
Layout for use with
Graph2DInt. |
| Graph3D |
Represents a graph as a 3D geometric shape.
|
| Graph3DInt |
Represents a graph as a 3D shape.
|
| Graph3DOutputOptions |
Output options for a Graph3DWriter
|
| Graph3DWriter |
Writer for a Graph3DInt object; default is to write using the domestic
XML representation.
|
| GraphableObject | |
| GraphException |
Exception for Graph objects.
|
| GraphFileLoader |
Abstract loader class for loading graphs.
|
| GraphFileWriter |
Abstract class for all graph writers.
|
| GraphFunctions |
Provides utility functions for Graphs.
|
| GraphFunctions.ArrowVisibility | |
| GraphFunctions.EdgeFactory |
Factory to create graph edges.
|
| GraphFunctions.EdgeVisibility | |
| GraphFunctions.GraphEdgeLabelRenderer |
Allows labels to be turned off.
|
| GraphFunctions.GraphNodeLabelRenderer |
Allows labels to be turned off.
|
| GraphFunctions.NodeFactory |
Factory to create graph nodes.
|
| GraphFunctions.NodeVisibility | |
| Graphic2DGrid |
Defines a 2D grid, for display in an
InterfaceGraphic2D window. |
| Graphic2DMouseListener | |
| GraphicEvent |
Event on an
InterfaceGraphic objects. |
| GraphicEvent.EventType | |
| GraphicListener | Deprecated. |
| GraphicMouseListener |
Mouse listener on an
InterfaceGraphic object. |
| GraphicPropertyListener | |
| GraphicsFunctions | |
| GraphImage |
Draws an image on a graph display.
|
| GraphInputOptions |
General options for loading a graph
|
| GraphInputOptions.GraphLoadType | |
| GraphOutputOptions |
General options for writing a graph to file.
|
| GraphShape |
Abstract class for objects which implement
VisualizationServer.Paintable; these can be used
to render shapes on a graph display window. |
| GraphTreeCellRenderer | |
| GraphXMLFunctions |
Utility class for XML operations involving graphs.
|
| GreyFileLoader | |
| Grid3D |
Holds a 3D array of values and a Box3D defining the distribution of these
values in R3.
|
| GridSampleModel |
This class represents image data which is stored in a band interleaved
fashion and for
which each sample of a pixel occupies one data element of the DataBuffer.
|
| GridVertexDataColumn |
Vertex data column defined for a
Volume3DInt. |
| HalfSpace | |
| HardLimitFunction | |
| Histogram |
Histogram representation of a dataset.
|
| HistogramPlot |
Histogram visualization panel
|
| HullAlgorithm | |
| IconObject |
Interface for objects which have an associated icon.
|
| IDFactory |
Static factory that produces unique ID numbers (long)
|
| Image2DInt |
Displays an image inside a Rect2D shape.
|
| Image2DTexture |
Creates a Texture2D object from a given image.
|
| Image3DInt |
Draws a rectangular planar image in R3.
|
| Image3DTexture | |
| ImageFileLoader | |
| ImageFilter | |
| ImageFunctions |
Utility class for imaging-related functions.
|
| ImageStackVideoDialog |
Sets parameters for an image stack output operation, via ImageStackVideoWriter.
|
| ImageStackVideoOptions |
Options for a video stack output operation; i.e., vis ImageStackVideoWriter.
|
| ImageStackVideoWriter |
Outputs a
Video to a stack of images which can be used to compile a video using a utility
such as VirtualDub. |
| ImagingIOFunctions | |
| ImportDataTableDialogBox |
Interface which allows the user to define and import tabular data (e.g., from a text file, spreadsheet, or
matrix) into a new table in a given data source.
|
| ImportDataTableLoader |
Imports data from an external format into a new
DataSource table. |
| ImportDataTableOptions |
Specifies options for importing data to a data source table.
|
| ImportDataTableTextLoader |
Imports data from a delimited text file into a new
DataSource table. |
| ImportDataTableTextOptions |
Specifies options for importing data from a text file to a data source table.
|
| Incremental | |
| InitFrame |
Frame which allows the user to select an init file on start-up.
|
| InitListener | |
| Instruction | |
| InterfaceAbstractGraph |
Abstract representation of a Graph in modelGUI; extends Jung's SparseGraph
|
| InterfaceAbstractModel | |
| InterfaceAttributePanel |
Panel to display and modify a given AttributeList.
|
| InterfaceAttributeTable |
An extension of JTable to display an AttributeList in tabular format.
|
| InterfaceButton | |
| InterfaceButtonPanel |
Interface panel displaying a list of tool-related buttons.
|
| InterfaceCaminoPanel | |
| InterfaceCanvas3D |
Acts as an InterfaceGraphic wrapper for the Canvas3D object, to enable mouse
handling which passes the correct source panel (set here as
|
| InterfaceCoCoMacPanel | |
| InterfaceComboBox |
Combo box which implements a variable width popup, which depends on the render mode and the
length of its items:
|
| InterfaceComboBox.RenderMode | |
| InterfaceComboBoxBak |
Extends
JComboBox to provide fixed- or variable-width dropdown lists, as well as the
ability to display icons. |
| InterfaceComboBoxBak.RenderMode | |
| InterfaceComboBoxRenderer |
Renderer for
InterfaceComboBox. |
| InterfaceComboPanel |
Interface panel allowing for the display of multiple interface panels, selected by a
combo box.
|
| InterfaceConsoleDisplay |
Window which displays console output.
|
| InterfaceCorticalThicknessPanel |
Panel providing an interface to cortical thickness databases and subject databases.
|
| InterfaceDataSensor<T extends MguiNumber> |
Represents an entity which senses changes to an input stream.
|
| InterfaceDataSource<T extends MguiNumber> |
Represents a source of data; i.e., an entity which emits discretized (presampled) signals.
|
| InterfaceDatasourcePanel |
Interface panel for displaying, querying, and managing tables and queries in a
connected data source.
|
| InterfaceDataSourceTimeSeries<T extends MguiNumber> |
Represents an XY signal source with multiple Y channels.
|
| InterfaceDataSourceXY<T extends MguiNumber> |
XY data source with unique X-Y pairs.
|
| InterfaceDataTable |
Interface panel for displaying a data table or query.
|
| InterfaceDataTableTitle | |
| InterfaceDialogBox |
Interface class acting as a general dialog box that can be extended and designed
using the protected init() method and the actionPerformed method implementing the
ActionListener interface.
|
| InterfaceDialogUpdater | |
| InterfaceDisplayPanel |
Main interface panel for displaying data graphically.
|
| InterfaceDynamicModelPanel | |
| InterfaceEnvironment |
Stores environmental variables and provides static methods to retrieve them.
|
| InterfaceEnvironment.OsType | |
| InterfaceEnvironment.Snapshot3DMode | |
| InterfaceFile | |
| InterfaceFilePanel |
InterfacePanel providing a standard interface for input & output operations. |
| InterfaceFilePanel.Command | |
| InterfaceFrame |
Abstract class to be extended by all frames which contain an
InterfaceDisplayPanel. |
| InterfaceFunctions |
Utility class for interface objects.
|
| InterfaceGraphDisplay |
Displays graphs and allows user interaction with them.
|
| InterfaceGraphDisplayTitle | |
| InterfaceGraphEvent | |
| InterfaceGraphic<T extends Tool> |
The base class for all graphical interface windows.
|
| InterfaceGraphic.GraphicType | |
| InterfaceGraphic2D |
Graphical interface window for display 2D shapes (Shape2DInt).
|
| InterfaceGraphic2DTextBox |
Status text box for a Graphic2D window.
|
| InterfaceGraphic3D |
Interface class for Java3D display.
|
| InterfaceGraphicListener |
Specifies a listener on
InterfaceGraphic objects. |
| InterfaceGraphicPanel |
Panel to define the display windows in InterfaceDisplayPanel, including:
1.
|
| InterfaceGraphicTextBox |
Represents a labelled text box which updates from mouse movement events on its registered
InterfaceGraphic components. |
| InterfaceGraphicWindow |
Provides a title for an
InterfaceGraphic window, which is a button. |
| InterfaceGraphListener | |
| InterfaceHideablePanel | |
| InterfaceIO |
Interface for all classes performing I/O operations.
|
| InterfaceIODialogBox |
Base class for all dialog boxes for specifying I/O options.
|
| InterfaceIOException | |
| InterfaceIOOptions |
Extends
InterfaceOptions specifically for I/O methods. |
| InterfaceIOPanel |
Interface for all panels performing IO operations involving
InterfaceDialogBox. |
| InterfaceIOType |
Specifies an Input/Output interface object; e.g., file loaders or writers.
|
| InterfaceLayoutFrame |
Frame to display a print layout window
|
| InterfaceLayoutPanel |
Interface panel allowing interaction with a 2D Layout object.
|
| InterfaceLayoutWindow |
Provides a window panel which specifies (via InterfaceLayoutObject) and renders a layout
containing graphical objects from existing windows or objects.
|
| InterfaceListPanel | |
| InterfaceMapPanel |
Panel to create and modify various maps, including colour maps and value maps.
|
| InterfaceMenu | |
| InterfaceMeshPanel |
Provides an interface to
Mesh3DInt objects. |
| InterfaceMorphPanel | |
| InterfaceMorphPanel2 | |
| InterfaceMouseListener |
Mouse listener for
InterfacePanel objects |
| InterfaceMouseObject | |
| InterfaceNetworkComponentListener | |
| InterfaceNetworkTreeNode | |
| InterfaceNeuralNetListener | |
| InterfaceNeuroAtlas |
Defines an atlas mapping a set of data points to integers which map in turn
to atlas names (via a name map).
|
| InterfaceNeuroComponentListener | |
| InterfaceNeuroMeshPanel | |
| InterfaceNeuroMeshPanel2 | |
| InterfaceNeuroTreeNode | |
| InterfaceObject |
Basic interface for all "interface" objects; i.e., objects which provide an interface between
the user and the underlying model.
|
| InterfaceObjectListener |
Listener for all interface objects; currently only specifies a function for handling an
object modification event.
|
| InterfaceOptions |
Base interface for specifying options or parameters for some process.
|
| InterfaceOptionsDialogBox |
Extension of
InterfaceDialogBox which provides a constructor accepting an instance
of InterfaceOptions as an argument, which should be used as a means to transfer information
between the dialog and its parent. |
| InterfaceOptionsTabbedDialogBox |
Extension of
InterfaceOptionsDialogBox which allows for tabs. |
| InterfacePanel |
Base class for all Swing panels (i.e., extensions of
JPanel) to be show in an instance of
InterfaceDisplayPanel. |
| InterfacePipeline |
Represents a series of
Tasks that are to be run sequentially, such that the output of a
task becomes the input of the subsequent one. |
| InterfacePipelinesPanel |
Provides a GUI for:
creating, viewing, modifying, deleting, and executing pipelines.
|
| InterfacePlot<T extends MguiNumber> |
Represents an abstract plot object.
|
| InterfacePlotDialog<T extends InterfacePlot<?>> |
Abstract class to be extended by all dialogs which define
InterfacePlot
objects. |
| InterfacePlotDisplay |
General graphic interface for all plots.
|
| InterfacePlotMgui |
General class for displaying ModelGUI plots.
|
| InterfacePlotMulti |
Allows the display of multiple plots in a single InterfacePlot panel.
|
| InterfacePlotObject |
Abstract representation of a plottable object; allows objects to be represented generically
as interface objects.
|
| InterfacePlotOptions<T extends InterfacePlot<?>> |
Options for a plot object.
|
| InterfacePlotOsp |
General class for displaying Open Source Physics (OSP) plots.
|
| InterfacePlotPanel | |
| InterfacePlotSgt<T extends SgtPlotObject<?>> |
Abstract class for displaying Scientific Graphics Toolkit (SGT) plots.
|
| InterfacePolygonPanel | |
| InterfacePopupMenu | |
| InterfaceProgressBar |
Panel to be used as a progress bar for all operations which require one.
|
| InterfaceProject |
Represents a modelGUI project, which specifies an organizational structure for persistent data
related to a common project.
|
| InterfaceProjectDialogBox |
Dialog for setting up or editing an InterfaceProject object.
|
| InterfaceProjectOptions | |
| InterfaceProjectPanel |
Panel which provides a user interface for InterfaceProjects.
|
| InterfaceQuery |
Interface for a class which allows it to query a given
InterfaceQueryObject. |
| InterfaceQueryObject |
Interface which specifies methods for querying an implementing object.
|
| InterfaceQueryPanel |
Provides an interface for queries; selecting and launching query tools,
displaying query results, etc.
|
| InterfaceRadialRep | |
| InterfaceRadialRep2 | |
| InterfaceSectionSetPanel |
Updated version of InterfaceSectionSet that sets a current section set for a
given Graphic2D window, and sets current sections for that window.
|
| InterfaceSelectionPanel |
Provides an interface for creating and managing shape selection sets.
|
| InterfaceSelectionSet |
Interface panel providing user interaction with selection sets.
|
| InterfaceSession |
This is the main entry point into the mgui application.
|
| InterfaceShape |
Abstract base class for all shape interfaces (ShapeInts).
|
| InterfaceShapeLoader |
Abstract loader class for all loaders which load InterfaceShape objects.
|
| InterfaceShapeQuery |
Base class for all shape queries.
|
| InterfaceShapeQuery.QueryMode | |
| InterfaceShapeQueryObject |
Defines a query object for
InterfaceShape instances. |
| InterfaceShapesPanel |
Interface panel providing a GUI for general shape-related functions.
|
| InterfaceShapesPanel.VertexSelectionTableModel | |
| InterfaceShapeWriter |
General writer for an
InterfaceShape object. |
| InterfaceShapeXMLHandler |
XML handler for an InterfaceShape object.
|
| InterfaceSplitPanel |
Displays two
InterfaceGraphicWindows, split either horizontally or vertically. |
| InterfaceStatusBarPanel |
Interface panel which acts as a status bar for a given instance of
InterfaceFrame. |
| InterfaceStripChart |
Displays an OSP StripChart; i.e., time vs.
|
| InterfaceTabbedDialogBox |
Extends InterfaceDialogBox to implement tabs.
|
| InterfaceTabbedDisplayPanel |
This class extends
InterfaceDisplayPanel in order to provide a tabbed window
pane, similar to a typical web browser. |
| InterfaceTableModel |
Abstract Table Model interface class.
|
| InterfaceTextBox | |
| InterfaceTool2DPanel | Deprecated. |
| InterfaceToolPanel |
Panel displaying buttons for various tools, categorized.
|
| InterfaceTransferable |
Extends
Transferable to provide an interface which allows both transfers of, and transfers into,
the underlying object. |
| InterfaceTree |
This class extends
JTree by specializing for modelGUI. |
| InterfaceTreeCellEditor | |
| InterfaceTreeCellRenderer |
Renderer for instances of
InterfaceObject. |
| InterfaceTreeNode |
Base class for tree nodes representing ModelGUI objects (instances of InterfaceObject).
|
| InterfaceTreePanel |
Provides a tree interface for model objects
|
| InterfaceTreeTable |
Provides an implementation for a tree/table combination.
|
| InterfaceView3DObject | |
| InterfaceVolumePanel |
Interface panel which allows the user to interact with Volume3DInt objects.
|
| InterfaceVolumeSetPanel |
Panel to provide an interface with a volume overlay set.
|
| InterfaceWorkspace |
A Workspace acts as a container for all data models and graphics windows.
|
| InterfaceWorkspace.CollectionTreeNode | |
| InterfileLoader |
Loads volume data stored in Interfile format.
|
| IntPolygon2DInt | |
| InvalidValueClassException | |
| IoFunctions |
Utility class which provides functions for common I/O operations.
|
| IoFunctions.FileType | |
| JavaProcess |
Represents a Java process; i.e., a class containing a
main method which allows it
to be run as a process. |
| JdbcOdbcDriver |
Specifies the driver for the JDBC-ODBC bridge
|
| JMultiLineToolTip | |
| JsonFileLoader |
Loads a Json format file.
|
| JsonFileWriter |
Writes a JSON-format file.
|
| K3DBinaryTree |
Implements a kd-tree for 3 dimensions; specifically Euclidian points in R3.
|
| K3DBinaryTree.K3DNode | |
| KohonenNet | |
| LayoutDocument |
Implements the top-level container for a 2D layout, containing renderable items within a fixed
coordinate system (document coordinates/units).
|
| LayoutItem |
Specifies an element to be rendered in a InterfaceLayoutDocument.
|
| LightweightShape | |
| Line2DInt | |
| LinearUpdater | |
| LineLayout |
Layout which provides a basic functionality for rendering components on horizontal lines.
|
| LineLayoutConstraints | |
| LineSegment2D |
Represents a line segment in R2.
|
| LineSegment3D |
Represents a line segment in R3.
|
| LineStyleDialog |
Dialog box to specify a line style (Stroke)
|
| LineTo | |
| LinkedDataStream<T extends java.lang.Comparable<T>> |
Provides a link to a data source, using a unique field as the link field.
|
| LocalToWindow | |
| LoggingTarget |
Specifies the destination for logging events
|
| LoggingType |
Specifies the type of logging; i.e., which types of messages will be logged
|
| LPolygon2DInt |
Light 2D polygon with no attributes (attributes are assignable)
|
| LPolygon3DInt | |
| Map |
Represents a coordinate mapping from one coordinate system to another (typically a model
system to screen or printer coordinates)
|
| Map2D |
Maps from a given coordinate system to the screen
|
| Map3D |
Class to provide an interface for mapping a 3D viewing platform.
|
| MapEvent | |
| MapListener | |
| MappedPolygon2D |
Implements a node mapping between two Polygon2D shapes.
|
| MappedPolygon2DPath | |
| MapWeight | |
| MapWeightComparator | |
| MathExpression |
Class represents a mathematical expression, and methods to evaluate it.
|
| MathExpressionDialogBox |
Dialog box to define a mathematical expression, given an instance of VariableObject
|
| MathExpressionOptions |
Options for a math expression evaluation.
|
| MathFunctions | |
| MatrixEditorDialog |
Dialog to edit and/or load a 4 x 4 matrix.
|
| MatrixFileLoader | |
| MatrixFileWriter |
Base abstract class for writing a matrix to file.
|
| MatrixFunctions |
Utility class providing functions on Jama matrices.
|
| MatrixImagePlot |
Plots a matrix as an image, with a specified colour map.
|
| MatrixImagePlot.ColourType | |
| MatrixInDialogBox |
Dialog for specifying input options for loading a matrix or vector from file.
|
| MatrixInOptions |
Options for loading a matrix from file.
|
| MatrixInOptions.Format | |
| MatrixInOptions.Variable | |
| MatrixInt |
Interface for a 2D matrix, represented internally as a Jama matrix of doubles.
|
| MatrixOutOptions | |
| MatrixPlotDataSource |
Data source representing a MatrixInt object.
|
| MatrixTransformLoader | |
| Mesh2DInt |
A 2D representation of a
Mesh3DInt object. |
| Mesh3D |
Geometry class to represent a 3D triangular mesh.
|
| Mesh3D.MeshFace3D |
Inner class which defines a face in a mesh
|
| Mesh3DInt |
Interface for a Mesh3D shape.
|
| Mesh3DLoader |
Deafult loader for loading a Mesh3DInt object.
|
| Mesh3DWriter |
Default writer for a
Mesh3DInt object. |
| MeshDataMaskOptions | |
| MeshDataMaskOptionsDialog | |
| MeshDataOptions | |
| MeshDataThresholdOptions | |
| MeshDataThresholdOptionsDialog | |
| MeshDecimation |
Utility class for specialized functions dealing with mesh decimation.
|
| MeshEdge |
Represents an edge in a mesh as a reference to its one or two adjacent triangular faces.
|
| MeshEdgeSet |
Represents a mesh in terms of triangles and edges.
|
| MeshEngine |
Engine for performing mesh-based algorithms.
|
| MeshFunctionException | |
| MeshFunctions |
Utility class containing static methods that perform some operation upon Mesh3D
shape objects.
|
| MeshFunctions.IndexedPoint3f | |
| MeshInflation | |
| MeshOptionsDialogBox | |
| MeshPlaneMaskOptions | |
| MeshPlaneMaskOptionsDialog | |
| MeshSmoothing |
Contains static methods for all mesh smoothing algorithms.
|
| MeshSubdivision |
Contains static methods for all mesh subdivision algorithms.
|
| MeshSubmeshOptions | |
| MeshSubmeshOptionsDialog | |
| MeshTriangle |
Represents a triangular mesh face, defined by three edges and an index referencing a
Mesh3D object
|
| MguiBoolean |
Implementation of
MguiNumber for values of type boolean. |
| MguiDouble |
Implementation of
MguiNumber for values of type double. |
| MguiExec |
Simple launcher for a modelGUI session which allows the user to specify an init file via the
InitFrame. |
| MguiFloat |
Implementation of
MguiNumber for values of type float. |
| MguiInteger |
Implementation of
MguiNumber for values of type int. |
| MguiLong |
Implementation of
MguiNumber for values of type long. |
| MguiNumber |
Interface for numbers used in ModelGUI.
|
| MguiPlotAxis |
An axis for an InterfaceMguiPlot object.
|
| MguiPlotEvent |
An event on an InterfacePlotMgui object.
|
| MguiPlotLayout |
Layout class for rendering an InterfaceMguiPlot object.
|
| MguiShort |
Implementation of
MguiNumber for values of type short. |
| MguiStart |
Simple launcher for a modelGUI session.
|
| MincSurfaceDataInDialogBox |
Input data for a MINC (obj) surface
|
| MincSurfaceDataInOptions | |
| MincSurfaceDataLoader | |
| MincSurfaceDataOutDialogBox | |
| MincSurfaceDataOutOptions | |
| MincSurfaceDataWriter |
Writes a Minc surface data file, which is simply a text file list of vertex-wise values, one per line, corresponding
to a surface mesh.
|
| MincSurfaceLoader |
Reads a MINC obj file into a Mesh3D shape.
|
| MincSurfaceOutDialog | |
| MincSurfaceWriter |
Writes a mesh to disk in MINC obj format.
|
| MincTransformLoader | |
| MorphDrawEngine | |
| MorphEngine |
Engine class implementing algorithms to create polygons which represent the intermediate
positions of a morphing between two polygons on adjacent sections.
|
| MorphNode2D | |
| MorphNodeMap2D | |
| MorphSections3DInt |
Class representing a set of intermediate sections (subsections), such that each
subsection holds an iterative morphing representation from some source shape to
some target shape.
|
| MorphSectionSetIterator | |
| MorrisLecarFunction |
Regional cortical model based upon Morris and Lecar (1981), and Breakspear et al.
|
| MotorNeuron | |
| MouseBehavior | |
| Mousedelta | |
| MouseInfo |
This class is used to store the information about a collection of mouse movements
|
| MouseRelayListener |
Relays a mouse event from a child panel to the parent
InterfaceGraphic. |
| MoveTo | |
| MricroLutLoader | |
| MricroLutWriter |
Writes a discrete colour map to an MriCRO-compatible lookup table (LUT) file.
|
| MySQLDriver |
Specifies the driver for MySQL connectivity.
|
| NamedDataSource |
Interface for a data source with named channels.
|
| NamedIcon |
Specifies a named icon.
|
| NamedObject |
Interface for all objects which specify a name.
|
| NameMap |
Associates a name with an integer.
|
| NameMapInOptions | |
| NameMapLoader |
Reads a name map from file.
|
| NameMapLoader.Format | |
| NameMapOutDialogBox | |
| NameMapOutOptions |
Specifies options for writing a name map (or multiple name maps) to file.
|
| NameMapTable | |
| NameMapWriter |
Writes a name map to an delimited ASCII file.
|
| NameMapXMLHandler |
XML (SAX) handler for a name map XML file.
|
| NativeProcess |
Represents a native process; i.e., one which runs from the OS command console.
|
| Neighbourhood |
Represents a 1-ring neighbourhood in a mesh.
|
| NeighbourhoodMesh |
Constructs a list of node neighbourhoods, i.e., for each node lists its neighbours.
|
| NetworkComponentEvent | |
| NetworkEvent | |
| NetworkException | |
| NetworkGraphElement |
Identifies subclasses as elements in a network graph.
|
| NetworkGraphEvent | |
| NetworkGraphListener | |
| NetworkListener | |
| NeuralNetConnection | |
| NeuralNetEvent | |
| NeuralNetGraph |
Extension of JUNG's DirectedSparseGraph designed to specifically represent instances
of NeuralNet.
|
| NeuralNetNode |
Extension of
DirectedSparseVertex to specifically represent nodes in neural networks, i.e.,
containing references to instances of Neuron. |
| NeuroComponentEvent | |
| NeuroConnectivityFunctions |
Utility class providing functions for determining neural connectivity from geometry.
|
| NeuroException |
Default exception for dynamic neuro model execution
|
| NeuroMeshEngine |
Engine for performing functions on cortical surfaces and other objects.
|
| NeuroMeshFunctions |
Utility class for mesh functions related to neuroscience applications.
|
| NeuroMeshFunctionsException | |
| NeuroMeshOptionsDialog | |
| Neuron | |
| NeuronalCompartmentalComponent | |
| NeuronalComponent | |
| NeuroNetException | |
| NewPlotDialog |
General dialog box for generation a new plot object.
|
| Nifti1Dataset |
Nifti1Dataset is an API for reading/writing nifti-1 datasets.
The definitive nifti-1 specification is the nifti1.h file on the NIfTI DFWG website |
| NiftiFunctions | |
| NiftiMetadata |
Data structure to store header information for Analyze 7.5 format volume files.
|
| NiftiVolumeLoader |
File loader to read Analyze 7.5 format volume files.
|
| NiftiVolumeWriter |
Writer for Nifti-format volumes.
|
| NodeMap2D |
Provides a mapping from a node to a set of other nodes.
|
| NodeMapComparator | |
| NodeShape |
Wraps a
java.awt.geom.Shape used to render graph or 2D shape nodes. |
| NodeShapeComboRenderer |
Extends
InterfaceComboBoxRenderer to allow rendering of node shapes. |
| NodesUpdater | |
| NonPrivateDefaultTreeCellRenderer |
Displays an entry in a tree.
|
| NoSuchTypeException | |
| NumberFunctions | |
| NumberStream |
This class provides a convenient way to read numbers from a text file
|
| Object3d |
interface for 3d objects that can be rendered on screen
|
| Object3dAdaptor |
Adaptor class for Object3d - provides default implementation for all the methods
|
| Object3dList | |
| ObjectNotQueriableException | |
| ODEException | |
| ODEFunction | |
| OptionList | |
| Paint3d | |
| Painter | |
| PaintVRML | |
| PajekGraphInputDialog |
Options dialog box for PajekGraphLoader.
|
| PajekGraphInputOptions |
Options for Pajek graph input.
|
| PajekGraphLoader |
Loads a graph from the Pajek graph format (see
http://pajek.imfm.si/doku.php).
|
| ParallelOutputStream |
Simple class which writes to multiple output streams
|
| PathDataRenderer |
Specifies how data attached to a path is to be rendered.
|
| PerceptronNet | |
| PersistentObject |
Interface for objects which can be made persistent (loaded from and written to persistent memory).
|
| PickInfoShape2D |
Provides information about a
Shape2DInt object which has been intersected with a pick
operation. |
| PipelineException | |
| PipelineFork |
Represents a fork in a pipeline; i.e., a branching point, where the output of the previous process becomes the
input of two or more independent pipelines.
|
| PipelineFunctions |
Provides a set of common functions operating on pipeline objects.
|
| PipelineInputOptions |
Options for loading a pipeline or multiple pipelines.
|
| PipelineJob | |
| PipelineLauncher |
A launcher for an
InterfacePipeline object. |
| PipelineLoader |
Loads a pipeline (or multiple pipelines) from file.
|
| PipelineOutputOptions | |
| PipelineProcess |
Represents a Java process specification, specified by an executable process (native or Java) and a set of parameters.
|
| PipelineProcessDialogBox |
A dialog box for creating or modifying a
PipelineProcess. |
| PipelineProcessInstance |
Represents a specific instance of a Java process.
|
| PipelineProcessInstanceDialogBox |
Dialog box for specifying a pipeline process instance.
|
| PipelineProcessInstanceOptions |
Options for a pipeline process instance.
|
| PipelineProcessLibrary |
Represents a collection of
PipelineProcesses, typically referring to the same underlying
software library. |
| PipelineProcessLibraryLoader |
Loads a
PipelineProcessLibrary from file. |
| PipelineProcessLibraryOptions |
Options for a PipelineProcessLibrary
|
| PipelineProcessLibraryWriter |
Writes a
PipelineProcessLibrary to file. |
| PipelineProcessLibraryXMLHandler |
XML handler for reading pipeline process libraries.
|
| PipelineProcessOptions |
Options for a
PipelineProcess. |
| PipelineState |
Represents the state of a pipeline.
|
| PipelineTask |
A task is a launchable component of a pipeline.
|
| PipelineTask.Status | |
| PipelineTaskEvent | |
| PipelineTaskListener | |
| PipelineTree |
Implements a tree interface for ModelGUI pipelines.
|
| PipelineTree.PopupObject | |
| PipelineTreeTransferHandler | |
| PipelineTreeTransferHandler.TransferType | |
| PipelineWriter |
Writes an
InterfacePipeline instance to file. |
| PipelineXMLHandler |
Handler for XML encoding of modelGUI pipelines.
|
| Plane3D |
Represents a plane in 3 dimensions, using a Point3d and a Vector3d (normal)
|
| Plane3DDialog |
Dialog box to specify a plane 3D
|
| Plane3DInt | |
| PlotException |
Plotting-related exception.
|
| PlotInputException | |
| PlotMap2D |
Specifies a mapping from data units to plot units and to graphic units.
|
| PlotMap2D.AxisType | |
| PlotTimeSeriesDataSource<T extends MguiNumber> |
A plot data source for XY data, with multiple named Y channels.
|
| PlotXYDataSource<T extends MguiNumber> |
Plot data source for X-Y data sets.
|
| Point2D |
Represents a 2D point.
|
| Point2DInt | |
| Point2DShape |
Represents a 2D point object, rendering a vector at a specified coordinate
|
| Point2DShapeLoader | |
| Point3d | |
| Point3dObject3d |
A Point3d that is also an Object 3d so that it can be rendered
|
| Points3d | |
| PointSet2D |
Represents a set of 2D points.
|
| PointSet2DInputDialogBox | |
| PointSet2DInputOptions |
Options for loading a PointSet2DInt object.
|
| PointSet2DInt |
Shape interface for a set of 2D vertices.
|
| PointSet2DLoader |
Loader class for PointSet2DInt objects.
|
| PointSet3D |
Represents a set of 3D points.
|
| PointSet3DDataInputDialogBox | |
| PointSet3DDataInputOptions | |
| PointSet3DDataLoader | |
| PointSet3DInputDialogBox | |
| PointSet3DInputOptions |
Options for loading a PointSet3DInt object.
|
| PointSet3DInt |
Shape interface for a set of 3D points.
|
| PointSet3DLoader |
Domestic loader for a 3D point set.
|
| PointStack |
This class stores the points that still need to be processed.
|
| Polygon2D |
Represents a series of connected 2D points, defining either a polyline
or a closed polygon.
|
| Polygon2DInt |
Interface for a 2D polygon.
|
| Polygon3d | |
| Polygon3D |
Geometry class for a polygon in R3.
|
| Polygon3DInt |
Interface for a 3D polygon object.
|
| PolygonEngine | |
| PolygonFunctions |
25 July, 2009
This file is part of modelGUI[core] (mgui-core).
|
| PolygonFunctions.PolyDirection | |
| PolygonSet3DInputDialogBox | |
| PolygonSet3DInputOptions |
Options for loading a PolygonSet3DInt object.
|
| PolygonSet3DInt |
Interface for a set of 3D polygons.
|
| PolygonSet3DLoader |
Loads a set of 3D polygon objects (*.poly3d) from text.
|
| PopupMenuObject |
Interface which should be implemented for all graphical objects which require popup menu
functionality.
|
| PostgreSQLDriver |
Specifies the driver for PostgreSQL connectivity.
|
| PostRenderingCanvas3D |
Extends
Canvas3D to provide post-rendering capabilities. |
| PowerfulTokenizer | |
| ProgressUpdater |
Interface specifying methods to enable progress updates.
|
| ProgressUpdater.Mode | |
| ProjectDataItem |
Specifies a data item in a modelGUI project, including its name, its I/O classes, and its filename
form (a pattern identifying the location or URL of the item).
|
| ProjectDirectory |
Specifies a project directory, including its subdirectories and all prespecified data items that it contains.
|
| ProjectDirectoryDialogBox |
Dialog box to define a
ProjectDirectory, and in particular the list
of ProjectDataItems it contains. |
| ProjectDirectoryOptions |
Options for a
ProjectDirectory. |
| ProjectFunctions |
Utilities for InterfaceProject objects.
|
| ProjectInstance |
Specifies an element instance in a project (e.g., a subject).
|
| ProjectInstanceGroup |
Represents a group partition in a project, which refers to a set of subdirectories within the
instances directory, each representing a different level of the group.
|
| ProjectIOException | |
| ProjectOptions |
Options for a project.
|
| PulseTrainUpdater | |
| PulseTrainUpdater | |
| QuadMesh3d | |
| QuadTreeTest | |
| Quaternion |
A quaternion.
|
| QueryEvent | |
| QueryListener | |
| QueryResult |
Stores a set of results for a specific query.
|
| QueryResultPanel | |
| QueryResultTable | |
| QueryResultTableModel |
Table model for
QueryResultTable. |
| QueryResultTableTreeEditor |
Editor allows tree node table appearance to be modified
|
| QueryResultTableTreeRenderer |
Renders a query as a table; all other objects as labels
|
| QueryShapeVertex |
Represents a specific vertex in a shape, for vertex-wise queries.
|
| QueryTool |
Interface for all query tools.
|
| QuickHull | |
| QuotedStringTokenizer | |
| RadialRep2D | |
| RadialRep2DInt | |
| RadialRepresentation | |
| Radius2D |
DEV NOTE: deprecate or change; does not have fixed geometry, thus doesn't fit definition of a
Shape. |
| Rect2D |
Represents a 2D rectangle.
|
| Rect2DInt |
Represents a 2D rectangle.
|
| Rect3D |
Represents a 3D rectangle shape, defined by four 3D nodes representing BL, BR, TR, TL corners, respectively.
|
| Rect3DInt | |
| ReifiedArrayList<E> |
Implements a version of
ArrayList which is reified (meaning that its generic type is retrievable. |
| Resources |
TODO: use this static class to define all core resources
|
| RGBFileLoader | |
| RotateView3DTask |
Video task which rotates a
Camera3D over a specific time interval,
with the rotation defined by an X and a Y angle. |
| RotateView3DTaskDialogPanel |
Dialog panel for a RotateView3DTask.
|
| RowNumberTable | |
| RowNumberTable.RowNumberRenderer | |
| RulerDialog |
Dialog to be displayed when executing a Ruler tool (ToolRuler2D or ToolRuler3D).
|
| SampleRay |
Represents a ray vector and regular samples along its trajectory (at a frequency of n / length).
|
| ScaledUnit |
Specifies a simple unit, scaled by a constant factor with respect to a base unit.
|
| ScalpAndSkullModelOptions |
Parameters for skull and scalp surface approximation.
|
| ScreenSizeCalculator | |
| SectionSet2DInt |
Provides a 2D representation of a 3D section set, where it intersects a particular plane.
|
| SectionSet3DInt |
Represents a set of parallel sections, based upon a reference plane
(thisShape), and a spacing value.
|
| SectionSet3DXMLHandler |
XML handler for a SectionSet3DInt object.
|
| SectionSetIterator | |
| SensoryNeuron | |
| SessionFrame |
Main frame class for an instance of ModelGUI.
|
| SetView3DTask | |
| SetView3DTaskDialogPanel |
Dialog panel for a SetView3DTask.
|
| SgtAxis<A extends gov.noaa.pmel.sgt.Axis> |
Interface for displaying an axis on a plot.
|
| SgtCartesianLayout<T extends SgtPlotObject<?>> |
Abstract extension of
SgtPlotObject for CartesianGraph objects. |
| SgtLine |
A plotted line in a Scientific Graphics Toolkit (SGT) plot.
|
| SgtLineLayout |
Layout for SGT line plots.
|
| SgtMultilinePlot |
Displays a line plot using the Scientific Graphics Toolkit (SGT) library.
|
| SgtMultilinePlotDialog |
Dialog box for specifying the source data, attributes, labels, and axes of a
SGT multiline plot object.
|
| SgtPlotEvent |
Event on a
InterfaceSgtPlot. |
| SgtPlotFunctions |
Utility class for Scientific Graphics Toolkit (SGT) plots.
|
| SgtPlotFunctions.AxisType |
Available axis types; one of:
X
Y
Z
T
|
| SgtPlotLayout<T extends SgtPlotObject<?>,G extends gov.noaa.pmel.sgt.Graph,A extends gov.noaa.pmel.sgt.Axis> |
The base layout panel for an SGT plot.
|
| SgtPlotLayout.GraphType | |
| SgtPlotLayoutOptions |
Options defining an SGT plot layout
|
| SgtPlotListener |
Defines an object which responds to events on an
InterfacePlotSgt. |
| SgtPlotObject<T extends gov.noaa.pmel.sgt.dm.SGTData> |
A plottable object for a Scientific Graphics Toolkit (SGT) plot.
|
| SgtPointSet |
Represents a set of points for an Scientific Graphics Toolkit (SGT) plot.
|
| SgtPointSetLayout |
Layout for point sets.
|
| SgtScatterplot |
Displays an XY scatter plot using the Scientific Graphics Toolkit (SGT) library.
|
| SgtScatterPlotDialog |
Dialog to allow user to specify source data and display options for an XY scatterplot.
|
| Shape |
This is the base interface for all shapes in mgui.
|
| Shape2D |
Base class to be extended by all 2D shapes.
|
| Shape2DInt |
Base class for all interfaces to 2D geometrical shapes.
|
| Shape2DSectionNode | |
| Shape2DSelectionSet | |
| Shape2DTreeNode | |
| Shape3D |
Base class to be extended by all 3D shapes.
|
| Shape3DInt |
Base class for all
Shape3D interface objects. |
| Shape3DSceneNode |
Holds a Java3D scene node representing a Shape3DInt object
|
| Shape3DTreeNode |
A tree node specialized for an instance of Shape3DInt.
|
| Shape3DUpdater | |
| Shape4DInt | |
| ShapeAttribute<V> |
Extends Attribute to indicate shape-specific parameters (e.g., whether
a change to the value requires a redraw.
|
| ShapeDataInputDialogBox |
Dialog box for ShapeDataLoader.
|
| ShapeDataInputOptions |
Options for loading vertex-wise data into a shape.
|
| ShapeDataInputOptions.Format | |
| ShapeDataLoader |
Loads vertex-wise data from tabular text files into shapes.
|
| ShapeEngine |
Engine class for general shape functions.
|
| ShapeEvent |
Event on an InterfaceShape object.
|
| ShapeEvent.EventType | |
| ShapeFunctions |
Utility class which provides functions related to
InterfaceShape objects generally. |
| ShapeFunctions.Point3fComparatorX | |
| ShapeFunctions.Point3fComparatorY | |
| ShapeFunctions.Point3fComparatorZ | |
| ShapeInputDialogBox |
Dialog box for loading a ModelGUI shape.
|
| ShapeInputOptions |
Options for loading an InterfaceShape object.
|
| ShapeIOException |
I/O exception on a shape loading process
|
| ShapeListener |
Specifies an object that listens to events on an InterfaceShape.
|
| ShapeModel3D |
The top container for all shape interfaces.
|
| ShapeModel3DInputDialog |
Dialog box for specifying options to load a
ShapeModel3D object into the workspace. |
| ShapeModel3DInputOptions |
Options for loading a ShapeModel3D object.
|
| ShapeModel3DListener |
Object which listens to events on a ShapeModel3D object.
|
| ShapeModel3DLoader |
Loader for a ShapeModel3D.
|
| ShapeModel3DOutputDialog |
Dialog box for specifying the XML output of a
ShapeModel3D. |
| ShapeModel3DOutputOptions |
Specifies options for writing a
ShapeModel3D object to XML. |
| ShapeModel3DTreeNode |
Tree node specialized for a ShapeModel3D object.
|
| ShapeModel3DWriter |
Writes a
ShapeModel3D object to XML. |
| ShapeModel3DXMLHandler |
XML handler for a ShapeModel3D object.
|
| ShapeModelEvent |
Represents an event on a ShapeModel3D object.
|
| ShapeModelEvent.EventType | |
| ShapeOutputDialogBox |
Dialog box for output of InterfaceShape objects.
|
| ShapeOutputOptions |
Output options for an InterfaceShapeWriter.
|
| ShapePanel2D |
Interface for panels hosting 2D shapes
|
| ShapeSceneNode | |
| ShapeSelectionEvent | |
| ShapeSelectionEvent.EventType | |
| ShapeSelectionListener | |
| ShapeSelectionSet | |
| ShapeSet |
Interface for all shape sets.
|
| ShapeSet2DInt |
Represents a set of
Shape2DInt objects. |
| ShapeSet2DXMLHandler |
XML handler for a ShapeSet2DInt object.
|
| ShapeSet3DInt |
Represents a set of
Shape3DInt objects. |
| ShapeSet3DXMLHandler |
XML handler for a ShapeSet3DInt object.
|
| ShapeStatsPanel |
Interface panel for performing statistical procedures on shapes.
|
| ShapeSummaryQuery |
Extension of
InterfaceShapeQuery to provide summary values for a shape,
or a vertex selection within that shape. |
| ShapeTreeCellEditor | |
| ShapeTreeCellRenderer | |
| ShapeTreeNode |
Provides a tree node for an instance of
InterfaceShape. |
| ShapeVertexObject |
Used as a user object for a Java3D Node representing a single vertex.
|
| ShapeXMLFunctions |
Utility class for methods related specifically to XML representations of
Shape or
InterfaceShape objects. |
| ShapeXmlLoader |
Loader for an InterfaceShape stored in domestic XML format.
|
| ShapeXmlWriter |
Writes an
InterfaceShape object to XML. |
| Shredder2 |
Extracts periodic chunks from binary data.
|
| SigmoidFunction |
As the name suggests...
|
| SignalProcessing |
Utility class for signal processing functions.
|
| SimpleAxon | |
| SimpleAxonEvent | |
| SimpleCompartment | |
| SimpleCorticalConnection | |
| SimpleCorticalConnectionEvent | |
| SimpleCorticalInput | |
| SimpleCorticalInputEvent | |
| SimpleCorticalOutput | |
| SimpleCorticalOutputEvent | |
| SimpleCorticalRegion | |
| SimpleCorticalRegionEvent | |
| SimpleDendrite |
Simple dendrite, e.g., for
SimpleNeuron. |
| SimpleDendriteEvent | |
| SimpleDendrites |
Basic input unit for, e.g.,
SimpleNeuron. |
| SimpleEnvironment<T extends MguiNumber> |
Represents a simple environment, with a set of named observable scalar state variables.
|
| SimpleEnvironmentEvent | |
| SimpleEnvironmentInputDataSource<T extends MguiNumber> |
Represents a simple input source for dynamic model environment.
|
| SimpleEnvironmentObservableDataSource<T extends MguiNumber> |
Simple data source which updates in response to changes in an environment's state variables.
|
| SimpleEnvironmentUpdater |
Default super class for environment updaters.
|
| SimpleEvent | |
| SimpleEvent | |
| SimpleMotorNeuron |
Simple implementation of a motor (output) neuron.
|
| SimpleMotorNeuronEvent | |
| SimpleNeuron |
Simple McCulloch-Pitts model of an artificial neuron.
|
| SimpleSensoryNeuron |
A simple input (i.e., sensory) neuron.
|
| SimpleSoma |
Simple soma for, e.g.,
SimpleNeuron. |
| SimpleSomaEvent | |
| SimpleStatistics | |
| SimpleSynapse |
Simple synapse for, e.g.,
SimpleNeuron |
| SimpleSynapseEvent | |
| Site3d |
A point in 3d space that can be rendered
|
| Soma | |
| SortedMesh |
Sorts a mesh by x, y, z and stores a list of sorted indices
|
| SortedShape3D |
Convenience class for sorting a shape's vertices in order of their x, y, and z coordinates,
respectively.
|
| SortedShape3D.Vertex | |
| SortedShape3D.VertexComparatorX | |
| SortedShape3D.VertexComparatorY | |
| SortedShape3D.VertexComparatorZ | |
| SpatialUnit |
Specifies a spatial unit, with respect to the default Java3D unit (meter).
|
| Sphere3D |
Represents a sphere in R3.
|
| SplitPanelEvent |
An event occurring on an
InterfaceSplitPanel |
| SplitPanelEvent.EventType | |
| SplitPanelListener |
Listens for changes on a split pane.
|
| SQLObject |
Specifies an object which produces SQL statements.
|
| StackLayout | |
| StartUpFrame |
A frame that is shown at startup and which allows the user to select from the current
list of workspaces (all "*.workspace" files located in the "workspaces" directory).
|
| StatFunctions |
Utility class providing general statistical functions.
|
| StaticLocationTransformer<V extends AbstractGraphNode> |
Simple transformer returns the static location of a graph vertex.
|
| StaticPipelineEvent |
Represents an static event on a pipeline; i.e., a change to its structure, etc.
|
| StaticPipelineEvent.EventType | |
| StaticPipelineListener |
Specifies a listener on an
InterfacePipeline |
| StlOutputOptions |
Options defining an output operation to STL format.
|
| StlOutputOptions.Format | |
| StlWriter |
Writes a
Mesh3D object to STL format, suitable for 3D printing. |
| StreamListener |
Listener for an I/O stream
|
| StringAttr | |
| StringFunctions | |
| StringVectorInOptions |
Options for reading an array of
String objects into a StringVectorInt instance. |
| StringVectorInt |
Stores an array of
String objects as a variable. |
| StringVectorLoader |
Loader class to input an array of
String objects into an StringVectorInt instance. |
| StrokeSample |
A panel that displays a stroke sample.
|
| SurfaceDataFileLoader |
Loads vertex-wise data into an InterfaceShape object.
|
| SurfaceDataFileWriter | |
| SurfaceDataInputDialogBox |
Dialog box for loading vertex-wise data into a surface.
|
| SurfaceDataInputOptions | |
| SurfaceDataInputOptions.DataType | |
| SurfaceDataOutputDialogBox | |
| SurfaceDataOutputOptions |
Options for outputting surface data to a text file (single column)
|
| SurfaceFileLoader |
Abstract loader class for all loaders which load Mesh3DInt objects.
|
| SurfaceFileWriter |
Represents an abstract surface file writer object.
|
| SurfaceInputDialogBox |
Dialog box for specifying options to load a Mesh3D from file.
|
| SurfaceInputOptions |
Options for inputting a Mesh3DInt object.
|
| SurfaceOutputDialogBox | |
| SurfaceOutputOptions |
Standard options for writing a surface to file.
|
| SVGFileFilter | |
| SVGFileInterface | |
| SVGInputOptions | |
| SVGInputOptions.SVGMap | |
| SVGObject | |
| SVGOptionsDialog | |
| SVGParser | |
| SVGParser.Mode | |
| SVGPath | |
| SVGStyle | |
| Synapse | |
| TabbedDisplayEvent | |
| TabbedDisplayEvent.EventType | |
| TabbedDisplayListener | |
| TaskParameter |
Specifies a parameter for a given PipelineProcess.
|
| TaskParameterInstance |
An instance of a task parameter.
|
| TaskTreeNode |
Tree node for a pipeline task.
|
| TaskTreeNodeEvent | |
| TaskTreeNodeListener | |
| TaskXMLHandler |
Handles XML for a PipelineProcessInstance.
|
| TempBitmapDrawer | |
| TensorVolume3DInt | |
| TestTexture | |
| TestTextureInt | |
| Text2D |
Represents a character string with 2D geometry.
|
| Text2DInt | |
| Text2DIntMouseCoords | |
| Texture3DTest | |
| TimedTest |
Test process; simply waits for a specified delay
|
| TimeFunctions | |
| Timer | |
| TimeSeriesPlot<T extends MguiNumber> |
Interface for an X-Y plot with multiple Y variables.
|
| TimeStepListener |
Interface for dynamic components to implement to receive time-step events from the
DynamicModelEngine
|
| TinySQLDialogPanel |
Dialog panel for a TinySQL data source.
|
| TinySQLDriver |
Specifies the driver for TinySQL connectivity.
|
| Tool |
Interface for any class which performs an operation or set of operations on ModelGUI objects, which
involves user interaction.
|
| Tool2D |
Abstract class for a Tool which operates on an
InterfaceGraphic2D window. |
| Tool3D |
Abstract class for a tool to be used on an InterfaceGraphic3D window.
|
| Toolable<T extends Tool> |
Interface for objects which can be operated on by a specific class of tools.
|
| ToolBehavior3DAdapter |
Adapter to act as bridge between AWT Behaviors and the Tools that respond to
them.
|
| ToolConstants | |
| ToolCreateEllipse2D | |
| ToolCreateImage2D |
Tool allows user to select a file or url pointing to an image, and specify
rectangular bounds for that image in model space.
|
| ToolCreateImage3D |
Tool to create a 3D image on a 2D window.
|
| ToolCreateMeshFromPolylines | |
| ToolCreateMeshFromPolylinesDialog | |
| ToolCreateMeshFromPolylinesOptions | |
| ToolCreatePolygon2D |
Allows the user to creates a Polygon2D shape.
|
| ToolCreateRect2D | |
| ToolCutMeshWithPlane |
Tool to cut a mesh into parts by intersecting it with a Plane3D object.
|
| ToolCutMeshWithPlaneDialog | |
| ToolCutMeshWithPlaneOptions | |
| ToolDataSource |
Tool operating on
DataSourcePanel windows. |
| ToolDefine3DGrid2D |
Tool to define a 3D grid on a 2D window.
|
| ToolDZoom2D | |
| ToolEvent |
An event on a Tool object
|
| ToolEvent.EventType | |
| ToolGetConvexHull2D | |
| ToolGetConvexHull2DDialog | |
| ToolGetConvexHull2DOptions | |
| ToolGetMeshIntersectionPolylines | |
| ToolGetMeshIntersectionPolylinesDialog | |
| ToolGetMeshIntersectionPolylinesOptions | |
| ToolGraph |
Abstract class to be inherited by tools which operate on graphs; i.e, through
InterfaceGraphDisplay. |
| ToolGraphAdapter | |
| ToolGraphImage |
Tool which inserts or appends an image to a graph window.
|
| ToolGraphImage.Type | |
| ToolGraphTransform |
Acts as a bridge between the mgui Tool interface and Jung's view control mouse plugins.
|
| ToolInputAdapter |
Abstract class providing a listener interface for all Tool input events.
|
| ToolInputEvent |
Event signifying that input has been detected and must be handled by a
Tool object. |
| ToolInputListener |
Interface for objects which respond to
ToolInputEvents. |
| ToolInputMouseAdapter |
Extends
ToolInputAdapter to respond specifically to mouse events. |
| ToolLayout2D |
Tool operating on a InterfaceLayoutObject.
|
| ToolListener | |
| ToolMouseAdapter | |
| ToolMouseEvent | |
| ToolMouseOrbit3D |
Tool to allow user to navigate a Graphic3D interface using the mouse.
|
| ToolPan2D | |
| ToolPlot | |
| ToolQueryShape2D |
Tool allowing point-and-click vertex-wise querying of 2D objects, for a InterfaceGraphic3D window.
|
| ToolQueryShape3D |
Tool allowing point-and-click vertex-wise querying of 3D objects, for a InterfaceGraphic3D window.
|
| ToolReversePolygon2D | |
| ToolRuler2D |
Allows the user to measure distance on a 2D window, along a path with N nodes.
|
| ToolSelectMeshBoundaryNodes | |
| ToolSelectNodesWithPolygon |
Tool specifies options with a dialog and then calls an inner class instance of Tool3D
to allow the user to select nodes on the Canvas3D.
|
| ToolSelectRegionBoundaryNodes |
Tool selects region boundary nodes of a mesh region (defined by its vertex values) based upon a vertex selected
by a mouse click.
|
| ToolSelectShape2D |
2D tool for selecting/deselcting shapes.
|
| ToolSelectShape3D |
3D tool for selecting/deselcting shapes.
|
| ToolTestInternalPoint2D | |
| ToolWindowZoom2D |
Interactive tool which allows the user to zoom on a window within the current view.
|
| ToolZoomExt2D | |
| TrackVisTractHeader |
Data structure for a TrackVis tract file header.
|
| TrackVisTractLoader | |
| TreeEvent | |
| TreeEvent.EventType | |
| TreeFunctions |
Utility class for operations on trees.
|
| TreeKeyHandler |
Object which is prepared to handle a key-press event on its tree node.
|
| TreeListener | |
| TreeObject |
Interface for all objects which issue
InterfaceTreeNodes. |
| TreeShape | |
| TreeTableModel |
TreeTableModel is the model used by a JTreeTable.
|
| TreeTableModelAdapter |
This is a wrapper class takes a TreeTableModel and implements
the table model interface.
|
| Triangle2D |
Represents a 2D triangle.
|
| Triangle3d | |
| Triangle3D |
Represents a 3D triangle.
|
| Triangle3dPlus |
A 3d triangle with a list of associated points
|
| TricubicSplineInterpolaterUpdater |
Extends TricubicSplineInterpolator to allow a
ProgressUpdater. |
| TypeExistsException | |
| TypeMap |
Holds a static list of constants representing distinct types, and an integer field
indicating the type of the present instance.
|
| Unit |
Specifies an abstract unit, with a conversion factor to some base unit.
|
| UnitConversionException |
This exception should be thrown when illegal parameters are passed to unit conversion
methods.
|
| UnixFunctions | |
| UnixFunctions.cat | |
| UnixFunctions.cp | |
| UnixFunctions.split | |
| Updateable | |
| Utility |
Base class for all utility classes.
|
| ValueItemComparator | |
| ValueMap |
Maps an integer key value with an assoicated object
|
| ValueMapItem | |
| VariableComboBox | |
| VariableEvent |
An event on a
VariableInt object. |
| VariableException | |
| VariableInt<T> |
An interface to a variable object.
|
| VariableListener |
Object which listens to events on
VariableInt objects. |
| VariableObject |
Interface allowing an object to represent a set of variables of a particular class type.
|
| VariablePlotTimeSeriesDataSource<T extends MguiNumber> |
An XY data source with a
VariableInt as its source. |
| VariablePlotXYDataSource<T extends MguiNumber> |
XY data source which uses two
VariableInt object as its X and Y sources. |
| VariableTableModel | |
| Vector2D |
Represents a 2D vector, defined by an end-point and a vector.
|
| Vector2DInt | |
| Vector3ColourMap |
Provides a colour mapping for a vector of size three, such that each element of the
vector has a colour assignment, and the resulting colour is a weighting of these
colours by x, y, z components:
|
| Vector3D |
Represents a 3D vector, defined by an end-point and a vector.
|
| Vector3DFileLoader |
General loader class for inputting 3D vector data.
|
| Vector3DInputOptions | |
| Vector3DInputOptions.X3DType | |
| Vector3DInt | |
| VectorDataLoader | |
| VectorInt<T extends MguiNumber> |
Represents an array of numeric values.
|
| VectorSet3DInputDialogBox | |
| VectorSet3DInputOptions |
Options for loading a VectorSet3DInt object.
|
| VectorSet3DInt | |
| VectorSet3DLoader | |
| VertexDataColumn |
Encapsulates a column of vertex-wise numerical data.
|
| VertexDataColumnEvent |
Specifies an event on a vertex data column.
|
| VertexDataColumnEvent.EventType | |
| VertexDataColumnListener |
Interface for listening to events on
VertexDataColumn objects. |
| VertexSelection |
Defines a selection of nodes for a shape object.
|
| VerticalLabelUI |
Extension of BasicLabelUI to allow vertical rendering of text
See
http://stackoverflow.com/questions/92781/how-do-i-present-text-vertically-in-a-jlabel-java-1-6/92962#92962
|
| Video |
Represents a video schedule, using a list of
VideoTask objects which are activated at
specific time points. |
| Video3D |
A
Video operating on an InterfaceGraphic3D window or its
associated objects. |
| VideoEvent |
An event on a
Video object. |
| VideoException | |
| VideoInputOptions | |
| VideoListener | |
| VideoLoader | |
| VideoOutputDialog | |
| VideoOutputOptions | |
| VideoTask |
Base class for a video task, which manipulates an
InterfaceGraphic
window or its associated InterfaceObjects, over a specified time
interval. |
| VideoTask3D |
Base class for video tasks which operate on an
InterfaceGraphic3D
window. |
| VideoTaskDialog |
A dialog to define a
VideoTask. |
| VideoTaskDialogPanel |
A dialog defining a
VideoTask object. |
| VideoTaskOptions | |
| VideoTaskType | |
| VideoWriter | |
| VideoXMLHandler |
A handler to load a video in XML format.
|
| VideoXMLLoader | |
| View3d | |
| View3D |
Represents a specific 3D view, defined by a frozen
Camera3D object. |
| View3dInfo | |
| View3DInputOptions |
Options for loading View3D objects.
|
| View3DLoader |
Loads a set of View3D objects from an XML file.
|
| View3DOutputDialogBox |
Dialog box to specify the output for a View3D object.
|
| View3DOutputOptions |
Options for writing a set of View3D objects to file.
|
| View3DWriter |
Writes a set of
View3D objects to file. |
| Viewer | |
| VolFile |
A VolFile is object holds the volume data from a file.
|
| VolFileLoader | |
| VolRendConstants | |
| Volume | |
| Volume2DInt |
2D sectional representation of a Volume3DInt.
|
| Volume3DInputStream | |
| Volume3DInt |
Class acting as interface to a volume shape, as defined by the Grid3D geometry
class.
|
| Volume3DRenderer |
Class providing functions for rendering a Volume3DInt object.
|
| Volume3DRenderer.Mode | |
| Volume3DTexture |
Class to create and return Texture3D and TexCoordGeneration objects from a given
set of grid data.
|
| Volume3DTexture.UpdateTextureType | |
| Volume3DUpdater |
Class implementing the ImageComponent3D.Updater interface, to allow modification
of volume data represented in a live Java3D node.
|
| Volume4DInputOptions | |
| Volume4DInt |
Volume with 3 space and 1 time dimension.
|
| Volume4DRenderer |
Renders dynamic volumes; i.e., blend a pixel's colour values from values obtained
from 1.) a sample from the time series of a 4D volume and 2.) the base volume.
|
| VolumeEngine |
Engine to perform built-in operations on volumes.
|
| VolumeFileDataSource |
Acts as a data source for volume files.
|
| VolumeFileInterface | |
| VolumeFileLoader |
Loader for reading from a volume (3D grid) file into a
Volume3DInt object. |
| VolumeFileWriteDialog | Deprecated. |
| VolumeFileWriteOptions | |
| VolumeFileWriter |
Writes a
Volume3DInt to file. |
| VolumeFunctions |
Utility class providing various functions for use on volume data (Volume3DInt and its descendants).
|
| VolumeFunctions.Operation | |
| VolumeFunctions.VolumeAxis | |
| VolumeFunctions.VolumeRotationAngle | |
| VolumeInputDialogBox |
Dialog box for specifying parameters for loading a Volume3D object
|
| VolumeInputOptions |
Options specifying a Volume3DInt object.
|
| VolumeInputOptions | |
| VolumeMaskDialog | |
| VolumeMaskDialog_old |
Provides several dialog box for setting volume masking parameters.
|
| VolumeMaskOptions | |
| VolumeMaskOptions_old |
Class to specify parameters for volume masking.
|
| VolumeMaskUpdater | |
| VolumeMetadata |
An interface for extracting metadata from a volume header.
|
| VolumeOutputDialogBox |
Dialog box for specifying options to write a
Volume3DInt to file, using the default (Nifti)
format. |
| VolumeOutputOptions |
Specifies options for outputting a
Volume3DInt to persistent storage. |
| VolumeSet3DInt |
A set of
Volume3DInt objects which render as an overlay image. |
| VRMLState |
This class stores state information needed to convert an Object3d
to VRML.
|
| WavefrontSurfaceLoader |
Loader for a Wavefront OBJ format surface mesh object.
|
| WavefrontSurfaceWriter |
Writer for a Wavefront OBJ format surface mesh object.
|
| WeightedGraphEdge |
Interface for a weighted graph edge
|
| WeightedSynapse | |
| WildcardFileFilter |
File filter allowing wildcard characters..
|
| WindowContainer |
Marker interface for all window containers
|
| WindowedColourModel |
Colour model useful for representing medical images.
|
| WindowEvent |
Specifies an event on a graphics window (instance of
InterfaceGraphic). |
| WindowEvent.EventType | |
| WindowListener |
Specifies a listener on
InterfaceGraphicWindow objects. |
| WorkspaceOutputOptions |
Specifies options for writing a workspace (i.e., an instance of
InterfaceWorkspace) to XML. |
| WorkspaceWriter |
Writes a workspace (i.e., an instance of
InterfaceWorkspace) to XML. |
| WunilDataset |
Extension of
Nifti1Dataset to allow data to be read from the WUNIL *.ifh format (used with
Caret). |
| WunilVolumeLoader |
Loader to load WUNIL IDF format volumes (University of Washington in St.
|
| X3DFileInterface |
Interface to X3D/VRML format text files.
|
| X3DScene3DInt | |
| XMLException | |
| XMLFunctions |
Utility class for XML-related functions.
|
| XMLInterruptException |
Exception used to prematurely terminate a SAX parse job.
|
| XMLObject |
Interface specifies methods for obtaining or writing the data contained in an implementing class in XML
format.
|
| XMLObject.XMLEncoding |
Defines the data I/O encoding, for internal XML representations.
|
| XMLObject.XMLType |
Defines the type of XML write to perform:
Normal: Objects are written by reference if possible, fully otherwise
Full: Objects are fully written
Reference: Objects are written by reference if possible, short otherwise
Short: Objects are written in short form
|
| XMLOutputOptions |
Specifies options for writing an XML object (i.e., an instance of
XMLObject). |
| XMLWriter |
Writes an XML object (i.e., any instance of
XMLObject). |
| XYData<T extends MguiNumber> |
An X-Y data pair.
|
| XYPlot<T extends MguiNumber> |
Interface for an XY plot
|