All Classes

Class	Description
AboutToRemoveEdgesEvent	Fired before an edge is actually removed so that listeners have a chance to clean up before the edge object disappears.
AboutToRemoveEdgesListener	Listener for AboutToRemoveEdgeEvents.
AboutToRemoveEdgeViewsEvent	When edge Views are about to be removed from a CyNetworkView, this event will be fired.
AboutToRemoveEdgeViewsListener	Listener for AboutToRemoveEdgeViewsEvent.
AboutToRemoveNodesEvent	Fired before a node is actually removed so that listeners have a chance to clean up before the node object disappears.
AboutToRemoveNodesListener	Listener for AboutToRemoveNodeEvents.
AboutToRemoveNodeViewsEvent	When node Views are about to be removed from a CyNetworkView, this event will be fired.
AboutToRemoveNodeViewsListener	Listener for AboutToRemoveNodeViewsEvent.
AbstractBounded<N extends Comparable<N>>	A bounded number object whose bounds values cannot be modified
AbstractCellEditor	An abstract, convenience implementation of a Cell Editor that really only adds event listener support.
AbstractConfigDirPropsReader	An abstract implementation of CyProperty<Properties> that attempts to read the specified properties file first from the jar file running this code and then appends any properties found in the local configuration directory to that properties object.
AbstractCyAction	An abstract implementation of the CyAction interface.
AbstractCyActivator	A simple BundleActivator with convenience methods for registering OSGi services and either getting references to single services or registering interest in all services of a specified type.
AbstractCyApp	Deprecated. (As of Cytoscape 3.7) Support for simple apps will be removed in a future version of Cytoscape, please provide an OSGi bundle app instead.
AbstractCyEdit	A small class used to create new undoable edits.
AbstractCyEvent<T>	A base implementation of CyEvent that can be used by events.
AbstractCyJob	This can be used as a base class for custom implementations of CyJob
AbstractCyNetworkReader
AbstractCyPayloadEvent<T,P>	A base implementation of CyPayloadEvent that can be used by events.
AbstractCySwingApp	Deprecated. (As of Cytoscape 3.7) Support for simple apps will be removed in a future version of Cytoscape, please provide an OSGi bundle app instead.
AbstractEdgeViewTask	The base class for all tasks that need to operate on an edge view and possibly its associated network view.
AbstractEdgeViewTaskFactory	An EdgeViewTaskFactory that is always ready to produce a TaskIterator.
AbstractFunction	Base class for all Function implementations.
AbstractGUITunableHandler	Base class for the various Swing implementations of TunableHandler.
AbstractInputStreamTaskFactory	TODO: Missing documentation
AbstractLayoutAlgorithm	The AbstractLayoutAlgorithm provides a basic implementation of a layout TaskFactory.
AbstractLayoutTask	This is a basic implementation of a LayoutAlgorithm Task that does some bookkeeping, but primarily delegates to the doLayout() method.
AbstractNetworkCollectionTask	The base class for all tasks that need to operate on a Collection of CyNetworks.
AbstractNetworkCollectionTaskFactory	An NetworkCollectionTaskFactory that is always ready to produce a TaskIterator.
AbstractNetworkSearchTaskFactory	This abstract implementation of NetworkSearchTaskFactory makes the method AbstractNetworkSearchTaskFactory.getQueryComponent() optional.
AbstractNetworkTask	Base class for all tasks that need to operate on a CyNetwork.
AbstractNetworkTaskFactory	A NetworkTaskFactory that is always ready to produce a TaskIterator.
AbstractNetworkViewCollectionTask	The base class for all tasks that need to operate on a Collection of CyNetworkViews.
AbstractNetworkViewCollectionTaskFactory	A NetworkViewCollectionTaskFactory that is always ready to produce a TaskIterator.
AbstractNetworkViewLocationTaskFactory	A base class for task factories that need to add a functionality to the network view considering a given location (for example adding a node where a mouse was clicked).
AbstractNetworkViewTask	The base class for all tasks that need to operate on a network view.
AbstractNetworkViewTaskFactory	A NetworkViewTaskFactory that is always ready to produce a TaskIterator.
AbstractNode	A node in the parse tree.
AbstractNodeViewTask	The base class for all tasks that need to operate on a node view and possibly its associated network view.
AbstractNodeViewTaskFactory	A NodeViewTaskFactory that is always ready to produce a TaskIterator.
AbstractParallelPartitionLayoutTask	This is an even more helpful implementation of a LayoutAlgorithm Task that extends AbstractPartitionLayoutTask and does the work of partitioning the CyNetworkView so that partitions may be laid out individually.
AbstractPartitionLayoutTask	This is a more helpful implementation of a LayoutAlgorithm Task that extends AbstractBasicLayoutTask and does the work of partitioning the CyNetworkView so that partitions may be laid out individually.
AbstractRootNetworkCollectionTask	The base class for all tasks that need to operate on a Collection of CyRootNetworks.
AbstractRootNetworkCollectionTaskFactory	A RootNetworkCollectionTaskFactory that is always ready to produce a TaskIterator.
AbstractRowTask	Base class for all tasks that need to operate on a CyRow.
AbstractStringTunableHandler
AbstractTableCellTask	A base class for Tasks that need to operate on a single CyTable cell.
AbstractTableCellTaskFactory	A TableCellTaskFactory that is always ready to produce a TaskIterator.
AbstractTableColumnTask	A base class for Tasks that need to operate on an entire CyTable column.
AbstractTableColumnTaskFactory	A TableColumnTaskFactory that is always ready to produce a TaskIterator.
AbstractTableTask	A base class for Tasks that need to operate on an entire CyTable.
AbstractTableTaskFactory	A TableTaskFactory that is always ready to produce a TaskIterator.
AbstractTask	A base class for tasks that need to be able to access the TaskIterator that contains them.
AbstractTaskFactory	A TaskFactory that is always ready to produce a TaskIterator.
AbstractTaskManager<T,C>	Provides access to a TunableInterceptor to all derived classes and a utility method to determine if an object has been annotated with Tunables.
AbstractToolBarComponent	An abstract, convenience implementation of ToolBarComponent.
AbstractTransformer<C,E>	A convenience base class for Transformers.
AbstractTreeTableModel	An abstract implementation of the TreeTableModel interface, handling the list of listeners.
AbstractTunableHandler	Provides the standard implementation for most of the methods declared by the TunableHandler interface.
AbstractTunableInterceptor<T extends TunableHandler>	An abstract base class for TunableRecorder and TunableMutator implementations.
AbstractViewUpdater<S>	A utility class that provides an implementation of RowsSetListener for a particular column and VisualProperty.
AbstractVisualMappingFunction<K,V>	A base class for visual mapping functions where all fields are immutable.
AbstractVisualProperty<T>	An abstract implementation of VisualProperty that omits the methods dealing with serializing data.
AbstractVisualPropertyEditor<T>	Abstract implementation of Visual Property Editor.
AbstractVisualPropertyValue	Base class for all VisualPropertyValue.
AbstractWebServiceClient	Abstract class for all web service clients.
AbstractWebServiceGUIClient	Abstract base class for web service clients with Swing GUI.
ActionEnableSupport	A class that allows the enabled state of an Action of JMenuItem to managed in a consistent way.
AddedEdgesEvent	An event fired when an edge is added to a network.
AddedEdgesListener	Listener for AddedEdgesEvents.
AddedEdgeViewsEvent	When edge View is added to a CyNetworkView, this event will be fired.
AddedEdgeViewsListener	Listener for AddedEdgeViewsEvent.
AddedNodesEvent	Event for upper layers.
AddedNodesListener	Listener for AddedNodesEvents.
AddedNodeViewsEvent	When node View is added to a CyNetworkView, this event will be fired.
AddedNodeViewsListener	Listener for AddedNodeViewsEvent.
Aggregator<T>	The Aggregator interface acts as a service interface for different methods of aggregating attribute data for the nodes in a CyGroup.
AnalyzeNetworkCollectionTaskFactory	Provides a TaskIterator to analyze a collection of networks.
Annotation	This is the base interface for all Annotations.
AnnotationFactory<T extends Annotation>	An interface describing a factory used to create Annotations.
AnnotationManager	The annotation manager is responsible for managing all of the annotations currently assigned to a particular org.cytoscape.view.model.NetworkView.
ApplyPreferredLayoutTaskFactory	This interface provides a task iterator for applying the preferred layout.
ApplyVisualStyleTaskFactory	Marker interface which provides a task iterator for applying a visual style to views.
AppsFinishedStartingEvent	An event that occurs when the Cytoscape core has started, and any installed apps have either finished starting or failed to start.
AppsFinishedStartingListener	Listener for the AppsFinishedStartingEvent.
ArgDescriptor	A class describing a function argument.
ArgType	An enum specifying a function argument type.
ArrowAnnotation	This is the interface for an arrow annotation.
ArrowAnnotation.AnchorType	This enum is used to indicate how the arrow is anchored to the source or target.
ArrowAnnotation.ArrowEnd	This enum is used to indicate which end of the arrow the operation is referring to.
ArrowShape	Marker interface representing edge end shape (arrow).
ArrowShapeVisualProperty	Visual Property for ArrowShape values.
Attribute	Java class for anonymous complex type.
AttributeHandlingType	The AttributeHandlingType enum contains the list of all of the different ways that attributes can be aggregated.
AvailableCommands	TODO: Missing documentation
BasicCollapsiblePanel	A user-triggered collapsible panel containing the component (trigger) in the titled border
BasicCollapsiblePanel.CollapseListener
BasicCyFileFilter	This is meant to be an basic implementation of CyFileFilter that can either be used directly or extended to provide different acceptance criteria.
BasicTunableHandlerFactory<T extends TunableHandler>	A convenience implementation of TunableHandlerFactory that will construct a TunableHandler of the specified type given the TunableHandler in question has at least two constructors, one with Field, Object, Tunable parameters and the other with Method, Method, Object, Tunable parameters.
BasicVisualLexicon	Basic Implementation of VisualLexicon.
Bend	Definition of Edge Bends.
BendFactory	Factory to create an instance of Bend.
Bookmarks	Java class for anonymous complex type.
BookmarksUtil	A set of utility methods to manipulate the bookmarks.
BooleanVisualProperty	Visual Property for Boolean values.
BoundaryRangeValues<T>	This class defines a data object representing the range values associated with a particular domain value, called a boundary value.
BoundedChangeListener<N>	Classes which wish to listen for changes in AbstractBounded objects (BoundedDouble, BoundedFloat, etc.) should implement this interface and add themselves as observers (listeners) to the object.
BoundedDouble	A Double object which has low and up bounds
BoundedFloat	A Float object which has low and up bounds.
BoundedInteger	An Integer object which has low and up bounds.
BoundedLong	A Long object which has low and up bounds.
BoundedTextAnnotation	The BoundedText annotation is a ShapeAnnotation that also implements Text.
BrewerType
Category	Java class for anonymous complex type.
CheckBoxJList	This class is based on CheckBoxJList: from SWING HACKS ISBN: 0-596-00907-0 By Joshua Marinacci, Chris Adamson
CloneNetworkTaskFactory	This interface provides a task iterator for network cloning.
CodeAndSourceLocation	Encapsulates compiled code with the location in the original source equation.
CollapseGroupTaskFactory	This interface provides a task iterator collapsing selection of nodes from a node view.
ColorButton	JButton that opens a Color Chooser when clicked and shows the previously set color as an icon.
ColorUtils
ColumnCreatedEvent	This event signals that a column has been created.
ColumnCreatedListener	Listener for ColumnCreatedEvents.
ColumnDeletedEvent	This event signals that a column has been deleted.
ColumnDeletedListener	Listener for ColumnDeletedEvents.
ColumnNameChangedEvent	This event signals that a columns name has been changed.
ColumnNameChangedListener	Listener for ColumnNameChangedEvents.
ColumnResizer	Automatically resize column based on the objects in the cell.
CommandExecutorTaskFactory	TODO: Missing documentation
CompositeFilter<C,E>	A Filter that computes the set-union or set-intersection of the Filters it contains.
CompositeFilter.Type	Determines how a CompositeFilter combines the results of its contained Filters.
ConnectSelectedNodesTaskFactory	This interface provides a task iterator for connecting selected nodes.
ContainsTunables	An annotation designed to signal that the annotated field contains fields and methods that are annotated with the Tunable annotation.
ContinuousEditorType	An enum describing the possible types of continuous editors.
ContinuousMapping<K,V>	An interface describing a continuous mapping from attribute value to visual property.
ContinuousMappingCellRendererFactory	A factory for creating TableCellRenderers for a particular ContinuousMappingEditor.
ContinuousMappingEditor<K extends Number,V>	A basic interface used to display continuous mapping editors.
ContinuousMappingPoint<K,V>	Encapsulates a ContinuousMapping Point with a single point value and associated BoundaryRangeValues.
ContinuousRange<T>	Defines a continuous range of values for VisualPropertys.
CreateNetworkViewTaskFactory	This interface provides a task iterator for creating network views.
CustomGraphicLayer	This interface defines the minimum interface to add a custom graphics to a CyNode.
Cy2DGraphicLayer	Custom graphic layer interface that allows a custom graphics implementation to draw directly onto the CyNetworkView's Graphics2D object.
CyAction	An interface that describes how an action should be placed within the menus and/or toolbars of the Swing application.
CyActivator
CyAppAdapter	Deprecated. (As of Cytoscape 3.7) Support for simple apps will be removed in a future version of Cytoscape, please provide an OSGi bundle app instead.
CyApplicationConfiguration	Application-wide setting will be accessible through this interface.
CyApplicationManager	Basic access to current and/or currently selected networks, views and rendering engines in an instance of Cytoscape.
CyColorChooser	This is an annoying re-implementation of JColorChooser.showDialog() that remembers recently used colors between invocations of the chooser dialog.
CyColorPaletteChooser	This defines a color chooser that allows users to choose colors from a palette and (optionally) change palettes.
CyColorPaletteChooserFactory	This defines a color chooser that allows users to choose colors from a palette and (optionally) change palettes.
CyColumn	This class describes a column in a CyTable.
CyColumnComboBox	An implementation of JComboBox that displays a list of CyColumns with their namespace icons.
CyColumnIdentifier	Interface used to carry and save information that represents a CyColumn (usually from a network CyTable).
CyColumnIdentifierFactory	A factory for creating CyColumnIdentifier objects.
CyColumnPresentation	Service that allows UI presentation to be given for a column namespace.
CyColumnPresentationManager	This class provides access to registered CyColumnPresentation service objects.
CyColumnSelector	An Swing control that allows the user to select a set of CyColumn objects.
CyCustomGraphics<T extends CustomGraphicLayer>	Base interface for all Custom Graphics.
CyCustomGraphics2<T extends CustomGraphicLayer>	Just an extension of CyCustomGraphics which provides a way for the custom graphics instance to define itself as a set of properties.
CyCustomGraphics2Factory<T extends CustomGraphicLayer>	Factory to create CyCustomGraphics2 objects.
CyCustomGraphicsFactory<T extends CustomGraphicLayer>	This interface provides the factory to create CyCustomGraphics objects.
CyDisposable	An interface for objects that require an explicit clean up at the end of their lifecycle.
CyEdge	An object that represents an edge within a network of nodes (vertices) and edges.
CyEdge.Type	The Type enum is used by methods in CyNetwork to restrict the edges that match a query.
CyEdgeViewContextMenuFactory	A factory interface used to produce a CyMenuItem (JMenuItem) that will be added to the context menu for the specified edge view.
CyEvent<T>	All Cytoscape events should extend this interface.
CyEventHelper	The basic event handling interface for Cytoscape.
CyFileFilter	An interface that captures the metadata description of a file type so that files of the specified type can be handled correctly by the application and the user interface.
CyFileFilterProvider	An interface extended by various reader and writer factories.
CyGroup	An object that represents a group of nodes and edges.
CyGroupAggregationManager	The CyGroupAggregationManager provides a mechanism to add new Aggregators to the group aggregation mechanism.
CyGroupFactory	An interface describing a factory used for creating CyGroup objects.
CyGroupManager	The CyGroupManager maintains information about all of the groups an instance of Cytoscape.
CyGroupSettingsManager	The CyGroupSettingsManager is responsible for providing an interface to all of the possible settings controlling CyGroups, including the default settings and group specific settings.
CyGroupSettingsManager.DoubleClickAction	The DoubleClickAciton enum provides the options for what to do when the user double-clicks on either a group node or a node that's a member of a group.
CyGroupSettingsManager.GroupViewType	The CyGroupSettingsManager.GroupViewType enum provides the options for how to visualize a group.
CyHelpBroker	Deprecated. JavaHelp no longer used in Cytoscape as of 3.4.
CyIdentifiable	CyIdentifiable is an interface that indicates that the implementing object can be considered a key into a table.
CyJob	A CyJob represents all of the state information necessary to marshal and unmarshal data, submit jobs, query job status, and fetch results.
CyJobData	CyJobData presents a general interface to sending data to and receiving data from a job.
CyJobDataService	The main interface for the marshalling and unmarshalling of data to be exchanged with remote services.
CyJobExecutionService	The CyJobExecutionService is a stateless service that can be used to provide remote job services, including the execution, cancellation, status checking, and retrieval of results.
CyJobManager	CyJobManager is responsible for managing all currently running CyJobs, including polling for changes in the Status of the job and notifying the CyJobMonitor provided by the App of the change in status.
CyJobMonitor	Apps are expected to implement this interface to receive notifications about job completions.
CyJobStatus	This object stores information about the status of a CyJob, including the actual job status (CyJobStatus.Status) and any message returned from the remote execution.
CyJobStatus.Status	This enum contains the primary status returned from the remote execution.
CyJSONUtil	This interface provides some very basic JSON representations of Cytoscape objects.
CyLayoutAlgorithm	A task factory specifically for layout algorithms.
CyLayoutAlgorithmManager	This class provides access to the available layout algorithms.
CyListener	The basic interface that any class interested in a particular type of event should implement.
CyMenuItem	A simple wrapper class that allows a JMenuItem to be associated with a gravity value which defines where in a menu the item should fall.
CyNetwork	CyNetwork is the primary interface for representing a network (graph) data structure in Cytoscape.
CyNetworkFactory	A singleton factory object used for instantiating CyNetwork objects.
CyNetworkManager	Basic access to networks and view in an instance of Cytoscape.
CyNetworkNaming	A utility that helps with the creation of unique network names.
CyNetworkReader	An extension of the Task interface that returns an array of CyNetwork objects that are read as part of the Task.
CyNetworkReaderManager	An object that registers all InputStreamReaderFactory singletons, processes specified input to determine the appropriate factory to use and then returns an instance of the correct CyNetworkReader for the input.
CyNetworkTableManager	Provides access to all network-table relationships.
CyNetworkView	Additional methods for CyNetworkView.
CyNetworkViewContextMenuFactory	A factory interface used to produce a CyMenuItem (JMenuItem) that will be added to the context menu for the specified network view.
CyNetworkViewDesktopMgr	Interface for managing CyNetworkViews within the desktop where they reside.
CyNetworkViewDesktopMgr.ArrangeType
CyNetworkViewFactory	Factory for CyNetworkView objects.
CyNetworkViewFactoryConfig	Used to configure the behavior of CyNetworkView objects created using the CyNetworkViewFactoryFactory service.
CyNetworkViewFactoryProvider	A singleton factory that is used to create CyNetworkViewFactory objects.
CyNetworkViewListener	Callback interface for use with CyNetworkView instances that are created from CyNetworkViewFactoryProvider factories.
CyNetworkViewManager	Basic access to network views in an instance of Cytoscape.
CyNetworkViewSnapshot	An immutable snapshot of a CyNetworkView created using the CyNetworkView.createSnapshot() method.
CyNetworkViewWriterFactory	A specialization of CyWriterFactory that allows a CyNetworkView or CyNetwork to be specified and written to an OutputStream.
CyNetworkViewWriterManager	A CyWriterManager specific to writing CyNetworkView objects.
CyNode	An object that represents a node (vertex) within a network of nodes and edges.
CyNodeViewContextMenuFactory	A factory interface used to produce a CyMenuItem (JMenuItem) that will be added to the context menu for the specified node view.
CyPayloadEvent<S,P>	An extension of CyEvent specifically for payload events.
CyProperty<P>	A general property service interface for providing access to different types of property objects as OSGi services.
CyProperty.SavePolicy	SavePolicy specifies how the CyProperty will be saved, or if it will not be saved.
CyPropertyReader	An extension of the Task interface that returns a property object.
CyPropertyReaderManager	An object that registers all InputStreamReaderFactory singletons, processes specified input to determine the appropriate factory to use and then returns an instance of the correct CyPropertyReader for the input.
CyPropertyWriterFactory	A specialization of CyWriterFactory that allows a property Object to be specified and written.
CyPropertyWriterManager	A CyWriterManager specific to writing property objects.
CyRootNetwork	CyRootNetwork is an interface for managing Cytoscape's meta-network implementation.
CyRootNetworkManager	A manager that provides access to the CyRootNetwork objects associated with CyNetwork objects.
CyRow	This interface represents one row in a CyTable.
CyServiceRegistrar	An interface to hide the OSGi dependencies needed to register services dynamically at runtime.
CyServiceRegistrarFactory
CyServiceRegistrarImpl	Implementation of CyServiceRegistrar.
CySession	A session is an immutable snapshot of the data contents of Cytoscape.
CySession.Builder	A implementation of the builder pattern used to construct immutable instances of CySession objects.
CySessionManager	This class primarily acts as a listener and tracks the state of the Cytoscape application.
CySessionReader	An extension of the Task interface that returns a org.cytoscape.property.session.Cysession object.
CySessionReaderManager	An object that registers all InputStreamReaderFactory singletons, processes specified input to determine the appropriate factory to use and then returns an instance of the correct CySessionReader for the input.
CySessionWriterFactory	A specialization of CyWriterFactory that allows a CySession to be specified and written.
CySessionWriterManager	A CyWriterManager specific to writing CySession objects.
CyShutdown	A service that will shutdown Cytoscape cleanly.
CyShutdownEvent	An event fired immediately before Cytoscape will be shutdown.
CyShutdownListener	The listener for the CyShutdownEvent.
CyStartEvent	An event fired after Cytoscape startup mostly complete (but not necessarily 100 percent).
CyStartListener	The listener for the CyStartEvent.
CySubNetwork	A CySubNetwork is a CyNetwork that is contained within a parent CyNetwork.
CySwingAppAdapter	Deprecated. (As of Cytoscape 3.7) Support for simple apps will be removed in a future version of Cytoscape, please provide an OSGi bundle app instead.
CySwingApplication	This interface provides basic access to the Swing objects that constitute this application.
CyTable	A simple representation of a table object consisting of rows and columns.
CyTable.Mutability	Mutability of the table specifies whether or not it is able to be deleted..
CyTableFactory	An interface describing a factory used for creating CyTable objects.
CyTableFactory.InitialTableSize	A description of the initial size of the table.
CyTableManager	A singleton object for managing registered CyTables.
CyTableMetadata	A snapshot of information about a relationship shared between a CyTable instance and an associated CyNetworks.
CyTableReader	An extension of the Task interface that returns an array of CyTable objects.
CyTableReaderManager	An object that registers all InputStreamReaderFactory singletons, processes specified input to determine the appropriate factory to use and then returns an instance of the correct CyTableReader for the input.
CyTableUtil	A collection of state-less, static utility methods provided to simplify querying of table objects.
CyTableWriterFactory	A specialization of CyWriterFactory that allows a CyTable to be specified and written.
CyTableWriterManager	A CyWriterManager specific to writing CyTable objects.
CyToolTip
CytoPanel	Interface to a CytoPanel.
CytoPanelComponent	An interface that allows a component to be registered as a service that will then be added to the appropriate CytoPanel.
CytoPanelComponent2	Implement this interface rather than CytoPanelComponent, if you want to allow your component to be retrieved from the CytoPanel by its identifier.
CytoPanelComponentSelectedEvent	The event fired to indicate that a CytoPanelComponent has been selected.
CytoPanelComponentSelectedListener	The listener for handling CytoPanelComponentSelectedEvent.
CytoPanelName	An enum that describes CytoPanels uses compass directions to describe their location within the application.
CytoPanelState	The different display states available for a CytoPanel.
CytoPanelStateChangedEvent	An event to indicate that a CytoPanel has changed state.
CytoPanelStateChangedListener	A listener for handling CytoPanelStateChangedEvents.
CyTransformerReader
CyTransformerWriter
CyUserLog	This contains the name of the user log.
CyVersion	An interface providing access to version information about this version of the Cytoscape application.
CyWriter	A marker interface used to identify tasks involved in writing data.
CyWriterFactory	A marker interface used to identify factories that create CyWriter instances.
CyWriterManager<W extends CyWriterFactory>	A CyWriterManager aggregates CyWriterFactory services for specific DataCategories and provides a mechanism for choosing the CyWriterFactory given a particular file type.
DataCategory	An enum that captures the types of data the IO package can read and write.
DataImportFinishedEvent<T>	An event indicating that data has been successfully imported.
DataImportFinishedListener	Listener for DataImportFinishedEvent.
DataSource	Immutable data source object, which represents one data file associated with an URL.
DataSource	Java class for anonymous complex type.
DataSourceManager	Entry point to access all data sources implemented as OSGi services.
DebounceTimer	A timer that can be used to ensure that time-consuming tasks, usually triggered by events, do not run too often.
DefaultDataSource	Basic implementation of DataSource.
DefaultViewEditor	Deprecated.
DefaultViewPanel	Deprecated.
DefaultVisualizableVisualProperty	Visual Property to represent abstract concept such as Node or Edge.
DeleteColumnTaskFactory	This interface provides a task iterator for deleting a column.
DeleteSelectedNodesAndEdgesTaskFactory	This interface provides a task iterator for deleting selected nodes and edges.
DeleteTableTaskFactory	This interface provides a task iterator for deleting a table.
DeselectAllEdgesTaskFactory	This interface provides a task iterator for deselecting all of the edges.
DeselectAllNodesTaskFactory	This interface provides a task iterator for deselecting all of the nodes.
DeselectAllTaskFactory	This interface provides a task iterator for deselecting all of the items.
DestroyNetworkTaskFactory	This interface provides a task iterator for destruction of networks.
DestroyNetworkViewTaskFactory	This interface provides a task iterator that destroys a network view.
DialogTaskManager	A specialization of TaskManager that creates a JDialog configuration object and expects the dialog parent to be a Window.
DirectlyPresentableTunableHandler	TODO: Missing documentation
DiscreteMapping<K,V>	An interface describing a discrete mapping from attribute value to visual property.
DiscreteMappingGenerator<V>	Generates Discrete mapping for a set of attribute values and a Visual Property.
DiscreteRange<T>	Defines a discrete range of values for VisualPropertys.
DoubleVisualProperty	Visual Property for Double values.
DropDownMenuButton	Button with drop down menu.
DynamicSubmenuListener	An extension of MenuListener that is used to describe dynamic submenus.
DynamicTaskFactoryProvisioner	TODO: Missing documentation
EdgeBendVisualProperty	Visual Property for Edge Bend values.
EdgeList	This class implements a wrapper for a List of CyEdges that can be used by the Tunables mechanism.
EdgeViewTaskFactory	A task factory that creates one or more tasks that operate on the specified View<CyEdge> within the specified CyNetworkView.
EdgeWeighter	The EdgeWeighter class.
EditNetworkTitleTaskFactory	This interface provides a task iterator for editing a network's title.
EditorManager	Manages all editor objects for the VizMap GUI.
ElementTransformer<C,E>	A transformer that transforms its input one element at a time and pushes the results into the given sink.
ElementTransformerFactory<C,E>	A factory for creating ElementTransformers.
Equation	The class representing an equation.
EquationCompiler	Compiler that compiles equations to byte (non-Java) code.
EquationFunctionAddedEvent
EquationFunctionAddedListener
EquationFunctionRemovedEvent
EquationFunctionRemovedListener
EquationParser	Parser for a string representing an equation.
EquationUtil	Various static utility methods relating to equations.
ExpandGroupTaskFactory	This interface provides a task iterator expanding a group from a node view.
ExportNetworkImageTaskFactory	This interface provides a task iterator for exporting networks as image.
ExportNetworkTaskFactory	This interface provides a task iterator for exporting network views.
ExportNetworkViewTaskFactory	This interface provides a task iterator for exporting network views.
ExportSelectedNetworkTaskFactory
ExportSelectedTableTaskFactory	This interface provides a task iterator for exporting the current table.
ExportTableTaskFactory	This task factory provides a task iterator for writing a specified table to a specified file.
ExportVizmapTaskFactory	This interface provides a task iterator for exporting the vizmap visual style.
FileChooserFilter	Used to hold extension(s) of acceptable file types and a short description of them.
FileUtil	Provides a platform-dependent way to open files.
Filter<C,E>	A transformer that decides whether to accept or reject elements.
FilterFactory<C,E>	A factory for creating Filters.
FinishStatus	Indicates the status of a task iterator when it has finished for TaskObservers.
FinishStatus.Type
FitContentEvent	Fit network visualization to the given container.
FitContentListener	Listener for FitContentEvent.
FitSelectedEvent	Fit only selected graph object views to the container.
FitSelectedListener	Listener for FitSelectedEvent.
FontVisualProperty	Visual Property for Font values.
Function	The basic description of a Function.
FunctionError	A class describing an error in a function.
FunctionUtil	A collection of static methods that may be useful for the implementation of built-in functions.
GravityTracker	This interface sepecifies a tracker that will be used to insert items (submenus, menu items and separators) into a menu based on their "gravity" or "weight".
GroupAboutToBeDestroyedEvent	This event signals that a group is about to be destroyed -- i.e.
GroupAboutToBeDestroyedListener	Listener for GroupAboutToBeDestroyedEvent
GroupAboutToBeRemovedEvent	This event signals that a group is about to be removed from a network, but not completely deleted.
GroupAboutToBeRemovedListener	Listener for GroupAboutToBeRemovedEvent
GroupAboutToCollapseEvent	This event signals that a group is either about to be expanded or collapsed in a particular network.
GroupAboutToCollapseListener	Listener for GroupAboutToCollapseEvent
GroupAddedEvent	This event signals that a new group has been added.
GroupAddedListener	Listener for GroupAddedEvent
GroupAddedToNetworkEvent	This event signals that an existing group has been added to a new network.
GroupAddedToNetworkListener	Listener for GroupAddedToNetworkEvent
GroupAnnotation	The GroupAnnotation is a container for a collection of annotations that should be grouped together.
GroupCollapsedEvent	This event signals that a group has either been expanded or collapsed in a particular network.
GroupCollapsedListener	Listener for GroupCollapsedEvent
GroupEdgesAddedEvent	This event signals that edges have been added to the network.
GroupEdgesAddedListener	Listener for GroupEdgesAddedEvent
GroupEdgesRemovedEvent	This event signals that edges have been removed from the network.
GroupEdgesRemovedListener	Listener for GroupEdgesRemovedEvent
GroupNodesAddedEvent	This event signals that edges have been added to the network.
GroupNodesAddedListener	Listener for GroupNodesAddedEvent
GroupNodesRemovedEvent	This event signals that edges have been removed from the network.
GroupNodesRemovedListener	Listener for GroupNodesRemovedEvent
GroupNodesTaskFactory	This interface provides a task iterator for grouping nodes.
GUITunableHandler	An extension of TunableHandler with added functionality to support the construction of a Swing-based UI.
GUITunableHandlerFactory<T extends GUITunableHandler>	A specialization fo TunableHandlerFactory for GUITunableHandler.
Handle	Defines a handle, an anchor point in the edge.
HandleFactory	Factory of the handle object.
HideSelectedEdgesTaskFactory	This interface provides a task iterator for hiding selected edges.
HideSelectedNodesTaskFactory	This interface provides a task iterator for hiding selected nodes.
HideSelectedTaskFactory	This interface provides a task iterator for hiding all of the selected items.
HideTaskFactory	This interface provides a task iterator for hiding the given nodes and edges.
HideUnselectedEdgesTaskFactory	This interface provides a task iterator for hiding unselected edges.
HideUnselectedNodesTaskFactory	This interface provides a task iterator for hiding unselected nodes.
HideUnselectedTaskFactory	This interface provides a task iterator for hiding unselected nodes and edges.
HolisticTransformer<C,E>	A transformer that takes its input altogether, transforms it, and pushes the results into the given sink.
HolisticTransformerFactory<C,E>	A factory for creating HolisticTransformers.
IconManager	Interface that provides constants for simple icons that can be used by Cytoscape and third party apps in order to create a more consistent GUI.
IdentDescriptor	Used to hold a current value for an equation's variable reference.
ImageAnnotation	This annotation positions an image on on the screen.
ImageCustomGraphicLayer	This interface defines a CustomGraphicLayer that paints an image on a node.
ImportDataTableTaskFactory	This interface provides a task iterator for importing a table data in a network data table.
InputStreamTaskFactory	A super interface that allows the input stream to be set for reader task factories.
IntegerVisualProperty	Visual Property for Integer values.
InteractivityChangedListener	Listens for changes in the system-level state of interactivity.
Interpreter	Executes the code represented by an equation.
InvertSelectedEdgesTaskFactory	This interface provides a task iterator for inverting the selected edges.
InvertSelectedNodesTaskFactory	This interface provides a task iterator for inverting the selected nodes.
JMenuTracker	A class that creates and manages hierarchies of JMenu objects.
JoinTablesTaskTaskFactory	TODO: Missing documentation
JSONResult	This interface is intended to facilitate retrieving valid JSON strings from ObservableTask.getResults(Class).
JStatusBar	Simple status bar with 3 fields.
JTreeTable	This example shows how to create a simple JTreeTable component, by using a JTree as a renderer (and editor) for the cells in a particular column in the JTable.
Justification	An ENUM that provides information about text justification.
LayoutEdge	The LayoutEdge class.
LayoutEdit	An undoable edit that will undo and redo of a layout algorithm applied to a network view.
LayoutNode	The LayoutNode class.
LayoutPartition	The LayoutPartition class contains all of the information about a single graph partition, where a partition is defined as all nodes in a graph that connect only to each other.
LayoutPoint	Simple immutable object which represents a point (x, y, z).
LexiconStateChangedEvent	Tell listeners a enabled/disabled visual properties.
LexiconStateChangedListener	Listener for LexiconStateChangedEvent.
LineType	Marker interface for line types.
LineTypeVisualProperty	Visual Property for LineType values.
ListChangeListener<T>	Classes which wish to listen for changes in ListSelection objects (ListSingleSelection, ListMultipleSelection) should implement this interface and add themselves as observers (listeners) to the object.
ListEditor	Generic editor for discrete values, such as Shape, Line Type, etc.
ListMultipleSelection<T>	List with items of type T : one or more items can be selected.
ListSelection<T>	A ListSelection object.
ListSingleSelection<T>	List with items of type T : only 1 item can be selected.
LoadMultipleNetworkFilesTaskFactory	This interface provides a task iterator for loading networks from multiple files at once.
LoadNetworkFileTaskFactory	This interface provides a task iterator for loading networks from a file.
LoadNetworkURLTaskFactory	This interface provides a task iterator for loading a URL into a network.
LoadTableFileTaskFactory	This interface provides a task iterator for importing the attribute file to one of network tables(Node,Edge or Network Table).
LoadTableURLTaskFactory	This interface provides a task iterator for importing an attribute URL to one of network tables(Node,Edge or Network Table).
LoadVizmapFileTaskFactory	An interface for loading styles from files.
LookAndFeelUtil	Class that provides useful methods to help create standard and consistent UI on the current Look and Feel and OS.
MapGlobalToLocalTableTaskFactory	This interface provides a task iterator for mapping a global to a local table.
MappableVisualPropertyValue	This is a special VisualPropertyValue that allows a VisualProperty value to be specified as depending on one or more CyColumns.
MappingFunctionFactoryManager	Manages factories to create actual mappings (discrete/passthrough/continuous).
MapTableToNetworkTablesTaskFactory	TODO: Missing documentation
MenuGravityTracker	This class inserts menu items and separators in a menu based on their "gravity".
MergeTablesTaskFactory	This interface provides a task iterator for merging two data tables.
MessageDialogs	There have been some issues with JOptionPane not working correctly when triggered from a command or automation script.
NamedTransformer<C,E>	A chain of Transformers with a user-defined name.
NetworkAboutToBeDestroyedEvent	This event signals that a network is about to be destroyed.
NetworkAboutToBeDestroyedListener	Listener for NetworkAboutToBeDestroyedEvent
NetworkAddedEvent	This event signals that a network has been added.
NetworkAddedListener	Listener for NetworkAddedEvent
NetworkCollectionTaskFactory	Produces a task iterator for the specified collection of networks.
NetworkDestroyedEvent	This event signals that a Network has been destroyed.
NetworkDestroyedListener	Listener for NetworkDestroyedEvent
NetworkImportWebServiceClient	Marker interface for web service clients that have ability to import network data.
NetworkSearchTaskFactory	Task Factory that has to be implemented in order to create and register a Network Search provider.
NetworkTaskFactory	A task factory that creates one or more tasks that operate on the specified CyNetwork.
NetworkViewAboutToBeDestroyedEvent	When a CyNetworkView is about to be destroyed, this event will be fired.
NetworkViewAboutToBeDestroyedListener	Listener for NetworkViewAboutToBeDestroyedEvent.
NetworkViewAddedEvent	When a CyNetworkView is added to a CyNetworkViewManager, this event will be fired.
NetworkViewAddedListener	Listener for NetworkViewAddedEvent.
NetworkViewCollectionTaskFactory	A task factory that creates one or more tasks that operate on the specified collection of network views.
NetworkViewDestroyedEvent	When a CyNetworkView is destroyed, this event will be fired.
NetworkViewDestroyedListener	Listener for NetworkViewDestroyedEvent.
NetworkViewLocationTaskFactory	An extension of TaskFactory that provides support for tasks that need to know the a location within a CyNetworkView to perform their task.
NetworkViewRenderer
NetworkViewTaskFactory	A task factory that creates one or more tasks that operate on the specified CyNetworkView.
NewEmptyNetworkViewFactory	An interface for creating new, empty network views.
NewNetworkSelectedNodesAndEdgesTaskFactory	This interface provides a task iterator for creating networks from selected nodes and edges.
NewNetworkSelectedNodesOnlyTaskFactory	This interface provides a task iterator for creating networks from selected nodes only.
NewSessionTaskFactory	This interface provides a task iterator for creating a new session.
NodeList	This class implements a wrapper for a List of CyNodes that can be used by the Tunables mechanism.
NodeShape	Marker interface for node shapes.
NodeShapeVisualProperty	Visual Property for NodeShape values.
NodeViewTaskFactory	A task factory that creates a task that operates on the specified View<CyNode> within the specified CyNetworkView.
NullCyNetworkView	A CyNetwork with no corresponding view.
NullDataType	An empty/null data type marker interface for Visual Properties holding no actual data.
NullVisualProperty	Visual Property for root.
ObjectFactory	This object contains factory methods for each Java content interface and Java element interface generated in the org.cytoscape.property.bookmark package.
ObjectPosition	ObjectPosition is the value that is used by Position VisualProperties.
ObservableTask	A Task that notifies its observers when it is finished executing.
OpenBrowser	A utility provided as an OSGi service for opening a web browser.
OpenSessionTaskFactory	This interface provides a task iterator for loading a session.
PaintedShape	This interface defines a the information required to construct a Shape that has an arbitrary fill Paint and Stroke.
PaintVisualProperty	Visual Property for Paint values.
Palette	This interface provides a consistent way for various providers (ColorBrewer, ColourLovers, etc.) to provide color palettes to Cytoscape routines.
PaletteProvider	This interface provides a consistent way for various providers (ColorBrewer, ColourLovers, etc.) to provide color palettes to Cytoscape routines.
PaletteProviderManager	The PaletteProviderManager provides a way for palette providers to register themselves.
PaletteType	This is an interface for defining types of palettes.
PanelTaskManager	A specialization of a TaskManager that creates a JPanel configuration object and expects its execution context to be another JPanel.
PartitionUtil	This class also provides static methods that are used to partition a network.
PassthroughMapping<K,V>	An interface describing a passthrough or identity mapping from attribute value to visual property.
PopupMenuGravityTracker	This class inserts menu items and separators in a menu based on their "gravity".
Position	An ENUM that provides values for the various anchors that may be used for text, customgraphics, etc.
Predicate	Various predicates that can be used to test conditions in Transformers.
PreferencesUpdatedEvent	An event indicating that system preferences have been updated.
PreferencesUpdatedListener	A listener for the PreferencesUpdatedEvent.
PresentationWriterFactory	A specialization of CyWriterFactory that allows a View rendered by the specified RenderingEngine to be specified and written.
PresentationWriterManager	A CyWriterManager specific to writing View objects.
PropertySheetUtil	Utility class to provide access to basic set of Visual Properties.
PropertyUpdatedEvent	This event signals that a CyProperty is updated.
PropertyUpdatedListener	Listener interface for PropertyUpdatedEvent.
ProvidesTitle	An annotation type that can be applied to a method which returns a String that will be used for the title of a Tunable user interface dialog window.
Range<T>	Defines a range of values for VisualPropertys.
RecentlyOpenedTracker	Manages list of recently opened files.
RemovedEdgesEvent	Just a signal in case anyone wants to resync after an edge has been removed.
RemovedEdgesListener	Listener for RemovedEdgesEvents.
RemovedNodesEvent	Just a signal in case anyone wants to resync after a node has been removed.
RemovedNodesListener	Listener for RemovedNodesEvents.
RenameColumnTaskFactory	This interface provides a task iterator for renaming a column.
RenderingEngine<T>	RenderingEngine is an interface for all visualizers which renders.
RenderingEngineAboutToBeRemovedEvent	When presentation (rendered graphics) is destroyed, this event should be fired.
RenderingEngineAboutToBeRemovedListener	Listener for RenderingEngineAboutToBeRemovedEvent.
RenderingEngineAddedEvent	When new presentation is created, its factory always creates a RenderingEngine).
RenderingEngineAddedListener	Listener for RenderingEngineAddedEvent.
RenderingEngineFactory<T>	A factory class to create visualization for a given view model.
RenderingEngineManager	Manager for RenderingEngine objects.
RequestsUIHelper	Interface to indicate that an app wants to have a UI helper provided.
RootNetworkCollectionTaskFactory	Produces a task iterator for the specified collection of root-networks.
RowList	This class implements a wrapper for a List of table rows that can be used by the Tunables mechanism.
RowsCreatedEvent	This event signals that rows have been created.
RowsCreatedListener	Listener for RowsCreatedEvent
RowsDeletedEvent	This event signals that rows have been Deleted.
RowsDeletedListener	Listener for RowsDeletedEvent
RowSetRecord	Holds a record of a CyRow that was set and what it was set to.
RowsSetEvent	This event signals that rows have been set.
RowsSetListener	Listener for RowsSetEvent
RowTaskFactory	A task factory that creates one or more tasks that operate on the specified CyRow.
SavePolicy	The SavePolicy of an object specifies whether or not it will be saved.
SaveSessionAsTaskFactory	This interface provides a task iterator for saving a session in a specified file.
SaveSessionTaskFactory	This interface provides a task iterator for saving a session.
SearchFinishedEvent<T>	An event that indicates a search has completed.
SearchFinishedListener	Listener for SearchFinishedEvent.
SearchWebServiceClient	Marker interface for web service clients sending search query and getting arbitrary search result.
SelectAdjacentEdgesTaskFactory	This interface provides a task iterator for selecting adjacent edges.
SelectAllEdgesTaskFactory	This interface provides a task iterator for selecting all of the edges.
SelectAllNodesTaskFactory	This interface provides a task iterator for selecting all of the nodes.
SelectAllTaskFactory	This interface provides a task iterator for selecting all of the items.
SelectConnectedNodesTaskFactory	This interface provides a task iterator for selecting connected nodes.
SelectedNodesAndEdgesEvent	Event that signals when the selection state of nodes and/or edges has changed within a network.
SelectedNodesAndEdgesListener	Listener for SelectedNodesAndEdgesEvent
SelectFirstNeighborsNodeViewTaskFactory	This interface provides a task iterator for selecting neighbor nodes.
SelectFirstNeighborsTaskFactory	This interface provides a task iterator for selecting the first neighbors.
SelectFromFileListTaskFactory	This interface provides a task iterator for selecting items based on a file.
ServiceProperties	Reserved keywords for OSGi service properties (meta data).
SessionAboutToBeLoadedEvent	This event is fired right before Cytoscape begins to load a session.
SessionAboutToBeLoadedListener	Any object that needs to know that a CySession is about to be loaded or created should implement this listener.
SessionAboutToBeSavedEvent	This event is fired synchronously by the CySessionManager at beginning of the CySessionManager.getCurrentSession() method.
SessionAboutToBeSavedListener	Any object that needs to know that a CySession is about to be created should listen to this event.
SessionLoadCancelledEvent	Deprecated. Just listen to SessionLoadedEvent instead now.
SessionLoadCancelledListener	Deprecated. Use SessionLoadedListener instead.
SessionLoadedEvent	This event is fired after a new session has been set in the CySessionManager.setCurrentSession(CySession, String) method and is used to notify interested parties in the change of state.
SessionLoadedListener	A listener for SessionLoadedEvents.
SessionSaveCancelledEvent	This event is fired when a session save task is cancelled, which can also happen because of exceptions.
SessionSaveCancelledListener	A listener for SessionSaveCancelledEvents.
SessionSavedEvent	TODO: Missing documentation
SessionSavedListener	A listener for SessionSavedEvents.
SetCurrentNetworkEvent	An event signaling that the a network has been set to current.
SetCurrentNetworkListener	A listener for SetCurrentNetworkEvents.
SetCurrentNetworkViewEvent	An event indicating that a network view has been set to current.
SetCurrentNetworkViewListener	A listener for SetCurrentNetworkViewEvents.
SetCurrentRenderingEngineEvent	This event signals that a RenderingEngine has been set as current.
SetCurrentRenderingEngineListener	Listener for SetCurrentRenderingEngineEvent.
SetCurrentVisualStyleEvent	TODO: Missing documentation
SetCurrentVisualStyleListener	TODO: Missing documentation
SetNetworkPointerEvent	Used to track setting of nested networks on nodes.
SetNetworkPointerListener	Listener for SetNetworkPointerEvents.
SetSelectedNetworksEvent	An event indicating the a collection of networks has been selected.
SetSelectedNetworksListener	A listener for SetSelectedNetworksEvents.
SetSelectedNetworkViewsEvent	An event that indicates that a collection of network views has been selected.
SetSelectedNetworkViewsListener	A listener for SetSelectedNetworkViewsEvents.
ShapeAnnotation	A Shape annotation supports annotations that can be drawn and filled on the graphics canvas.
ShapeAnnotation.ShapeType
SimpleCyProperty<P>	A simple implementation of CyProperty suitable for general purpose use.
SimpleGUITunableHandlerFactory<T extends GUITunableHandler>	A specialization for GUITunableHandlers.
SnapshotEdgeInfo	Contains additional info about a View<CyEdge> obtained from a CyNetworkViewSnapshot.
SnapshotNodeInfo	Contains additional info about a View<CyNode> obtained from a CyNetworkViewSnapshot.
SpacialIndex2D<K>	Stores the location and rectangular boundary of objects (typically View<CyNode> objects) in 2D space.
SpacialIndex2DEnumerator<K>	Enumerator returned when querying a SpacialIndex2D, used to iterate over the results of the query.
StatusBarPanelFactory	Creates a JPanel that is shown at the bottom of the Cytoscape Desktop. NOTE: this is not meant to be implemented by App developers.
StreamUtil	A stateless utility class that provides special handling to support InputStreams and URLConnections over the network.
StringToModel	The service implementing StringToModel provides a common mechanism for converting command arguments into Cytoscape model elements.
StringTunableHandler
StringTunableHandlerFactory<T extends StringTunableHandler>
StringVisualProperty	Visual Property for String values.
SubFilterTransformer<C,E>	A Transformer that contains a CompositeFilter that it uses to filter its output.
SUIDFactory	This singleton class returns unique, positive SUID (session unique ID) values.
SUIDUtil	This utility class provides methods to save and restore SUIDs that are sent to remote execution environments across sessions.
SwingUndoSupport	In general, developers should NOT use this interface or the classes it provides access to to post edits and should use UndoSupport instead.
SynchronousTaskManager<T>	A marker interface that indicates that the TaskManager in question will execute the tasks found in the TaskFactory synchronously with the current thread, blocking code execution until all tasks finish.
TableAboutToBeDeletedEvent	This event signals that a table is about to be deleted.
TableAboutToBeDeletedListener	Listener for TableAboutToBeDeletedEvent
TableAddedEvent	This event will be fired when new table is added to CyTableManager.
TableAddedListener	Listener for TableAddedEvent.
TableCellTaskFactory	A task factory that creates one or more tasks that operate on the specified CyColumn along with primary key.
TableColumnTaskFactory	A task factory that creates one or more tasks that operate on the specified CyColumn.
TableDeletedEvent	This event signals that a table has been deleted.
TableDeletedListener	Listener for TableDeletedEvent
TableImportWebServiceClient	Maker interface for web service clients that have ability to import table data.
TablePrivacyChangedEvent	This event is fired when a table privacy is changed from public to private or vice versa.
TablePrivacyChangedListener	Listener interface for handling TablePrivacyChangedEvent.
TableTaskFactory	A task factory that creates one or more tasks that operate on the specified CyTable.
TableTitleChangedEvent	TODO: Missing documentation
TableTitleChangedListener	TODO: Missing documentation
Task	This interface specifies a unit of work to be executed asynchronously in its own Thread along with a user interface to display its progress, provide a means for the user to cancel the Task, and show information about any Exceptions thrown during its execution.
TaskFactory	Returns an instance of a TaskIterator.
TaskIterator	A TaskIterator provides the functionality of sequencing Tasks.
TaskManager<T,C>	Executes the Tasks found in the TaskIterator provided by a TaskFactory.
TaskMonitor	Used by a Task's implementation run method to inform users of the status of its execution.
TaskMonitor.Level	Used by the showMessage method to indicate the severity of the message.
TaskObserver	An observer that gets notified when an ObservableTask finishes executing.
TaskStatusPanelFactory	Deprecated.
TextAnnotation	A text annotation is a simple text string that is displayed on the network canvas.
TextIcon	Renders any text/font as an icon.
ToolBarComponent	An interface that allows a component to be registered as a service that will then be added to the ToolBar.
Transformer<C,E>	Transforms a stream of elements from a particular context.
TransformerContainer<C,E>	A class that contains and manages a list of Transformers.
TransformerFactory<C,E>	The base interface for all Transformer factories.
TransformerListener	Listens for changes to Transformer parameters.
TransformerManager	A class for creating and executing Transformers.
Transformers	Identifiers of the Transformers supplied by the core.
TransformerSink<T>	Collects the results of a transformation.
TransformerSource<C,E>	Provides a sequence of elements from a context.
TransformerViewFactory	A factory for making UI panels to configure a specific Transformer.
TreeNode	The interface for a node within the Equation parse tree.
TreeTableModel	TreeTableModel is the model used by a JTreeTable.
TreeTableModelAdapter	This is a wrapper class takes a TreeTableModel and implements the table model interface.
Tunable	An annotation type that can be applied to public fields or a methods in a Task object that allows the Task to be configured with user supplied information.
TunableGravityOrderer	This class provides a comparator to order the Tunables based on their gravity value.
TunableHandler	Interface for classes that deal with reading out and writing back Tunables and their properties.
TunableHandlerFactory<T extends TunableHandler>	A factory service to create a TunableHandler for a single type of object, determined by the type of the field or the return value of the getter method in the appropriate methods.
TunableMutator<T extends TunableHandler,S>	This is a type of tunable interceptor that reads and modifies the values annotated with the Tunable annotation.
TunablePropertyHandler	An extension of TunableHandler with added functionality to support converting to/from a String.
TunablePropertyHandlerFactory<T extends TunablePropertyHandler>	A specialization of TunableHandlerFactory for TunablePropertyHandler.
TunablePropertySerializer	This is a type of tunable interceptor that converts the values annotated with Tunable annotations to and from a Properties object.
TunablePropertySerializerFactory	Factory to create TunablePropertySerializer instances.
TunableRecorder<T extends TunableHandler>	TunableRecorder is a special type of tunable interceptor that reads the state of the tunables but does not modify the value of the tunables.
TunableSetter	An API for setting tunable fields and methods with predetermined values in the Tasks found in the specified TaskIterator.
TunableUIHelper
TunableValidator	If implemented, this interface is used to apply a test to the modified values of a Tunable.
TunableValidator.ValidationState	The states the the validator can return.
UndoSupport	A simple interface that posts edits to the Cytoscape undo stack.
UnGroupNodesTaskFactory	This interface provides a task iterator ungrouping a selection of nodes from a node view.
UnGroupTaskFactory	This interface provides a task iterator ungrouping a group from a network view.
UnHideAllEdgesTaskFactory	This interface provides a task iterator for unhiding all edges.
UnHideAllNodesTaskFactory	This interface provides a task iterator for unhiding all nodes.
UnHideAllTaskFactory	This interface provides a task iterator for unhiding everything (all nodes and edges).
UnHideSelectedEdgesTaskFactory	This interface provides a task iterator for unhiding selected edges.
UnHideSelectedNodesTaskFactory	This interface provides a task iterator for unhiding selected nodes.
UnHideTaskFactory	This interface provides a task iterator for unhiding the given nodes and edges.
UnsetNetworkPointerEvent	Used to track removing of nested networks from nodes.
UnsetNetworkPointerListener	Listener for UnsetNetworkPointerEvents.
UpdateNetworkPresentationEvent	If something has been changed in the view model, presentation layer should catch the event and update its visualization.
UpdateNetworkPresentationListener	Listener for UpdateNetworkPresentationEvent.
UserAction	Support for a user initiated action
ValidatableTransformer<C,E>	A marker interface that can be added to any Transformer to indicate that the transformer may be invalid in certain contexts.
ValidationWarning	A warning message that will appear in the UI when a Transformer is invalid.
ValueEditor<V>	Provides a GUI Editor for a data type.
ValueTranslator<V,T>	Translate given table value to a Visual Property value.
View<S>	The base interface that defines methods used to set visual properties for nodes, edges, and networks.
ViewChangedEvent<T>	This event is fired when a VisualProperty value is set or removed from a View.
ViewChangedListener	Listener for ViewChangedEvent.
ViewChangeRecord<T>	A utility class used to describe one change to a View.
VirtualColumnInfo	Information object for columns that stores extra Virtual Column information if applicable.
Visualizable	Marker interface for data types used by higher-level Visual Properties such as NODE, EDGE, or NETWORK.
VisualLexicon	A RenderingEngine should provide one, immutable lexicon implementing this interface.
VisualLexiconNode	A node in the visual property tree (lexicon).
VisualMappingFunction<K,V>	This class defines how an attribute gets mapped to a visual property. It takes two values: Attribute value: node name(Strings), expression values(Numbers), ... Visual Property: node size(Numbers), edge color(Color), node shape(NodeShape), ... This provides the mapping function from converting the attribute to the visual property.
VisualMappingFunctionChangedEvent	VisualMappingFunctions should fire this event when the contents of the mapping are modified.
VisualMappingFunctionChangedListener	This listener is used by the VisualStyle implementation, so a style can be notified when its visual mappings are changed.
VisualMappingFunctionChangeRecord	This is used to create a VisualMappingFunctionChangedEvent.
VisualMappingFunctionFactory	Factory for VisualMappingFunctions.
VisualMappingManager	Manager for VisualStyles.
VisualProperty<T>	An object which represents a type of visual entity, such as node color, size, etc.
VisualPropertyDependency<T>	Represents a set of Visual Properties to be set by their parent value if dependency is enabled.
VisualPropertyDependencyChangedEvent	Visual property dependencies should fire this event when VisualPropertyDependency.setDependency(boolean) is called with a different value.
VisualPropertyDependencyChangedListener	This listener is used by the VisualStyle implementation, so a style can be notified when VisualPropertyDependency.setDependency(boolean) is called on any of its visual property dependencies.
VisualPropertyDependencyFactory<T>	TODO: Missing documentation
VisualPropertyEditor<T>	Facade of all editor-related objects for a Visual Property.
VisualPropertyEditor2<T>	If you are writing a VisualPropertyEditor but need to know the visual property you are editing (eg to check if the user inputted a value in the visual property's range), implement this interface in addition to VisualPropertyEditor.
VisualPropertyUtil	Utility functions for traversing visual lexicon tree.
VisualPropertyValue	Object used as a Visual Property value.
VisualPropertyValueEditor<V>	Provides a GUI Editor for a data type.
VisualStyle	A VisualStyle is a collection of VisualMappingFunctions and default values that define how a set of attributes is mapped to visual properties of View objects.
VisualStyleAboutToBeRemovedEvent	This event will be fired when VisualStyle object is removed from VisualMappingManager.
VisualStyleAboutToBeRemovedListener	Listener for VisualStyleAboutToBeRemovedEvent.
VisualStyleAddedEvent	When new VisualStyle is added to the VisualMappingManager, it fires this event.
VisualStyleAddedListener	Listener for VisualStyleAddedEvent.
VisualStyleChangedEvent	When contents (default values or mappings) of an existing VisualStyle is modified, this event should be fired.
VisualStyleChangedListener	TODO: Missing documentation
VisualStyleChangeRecord	This is used to create a VisualStyleChangedEvent.
VisualStyleFactory	Factory for VisualStyles.
VisualStyleSetEvent	Event fired when a VisualStyle is set to a network view through VisualMappingManager.setVisualStyle(VisualStyle, org.cytoscape.view.model.CyNetworkView).
VisualStyleSetListener	Listener for VisualStyleSetEvent.
VizMapEventHandler	Handler for Vizmap-GUI-local PropertyChangeEvent.
VizMapEventHandlerManager	Manages VizMapEventHandlers.
VizMapGUI	Deprecated.
VizmapReader	An extension of the Task interface that returns a VisualStyle object.
VizmapReaderManager	An object that registers all InputStreamReaderFactory singletons, processes specified input to determine the appropriate factory to use and then returns an instance of the correct VizmapReader for the input.
VizmapWriterFactory	A specialization of CyWriterFactory that allows a VisualStyle to be specified and written.
VizmapWriterManager	A CyWriterManager specific to writing VisualStyle objects.
WebServiceClient	Thin wrapper for SOAP/REST web service clients.
WebServiceGUI	Cytoscape's unified UI for accessing web services.
WebServiceGUIClient	An interface that allows web service clients to provide their own GUI component.
WeightTypes	An enum describing different weighting strategies.