Hierarchy For All Packages

Package Hierarchies:

cytoscape, cytoscape.actions, cytoscape.data, cytoscape.data.annotation, cytoscape.data.annotation.readers, cytoscape.data.attr, cytoscape.data.attr.util, cytoscape.data.ontology, cytoscape.data.ontology.readers, cytoscape.data.readers, cytoscape.data.servers, cytoscape.data.servers.ui, cytoscape.data.synonyms, cytoscape.data.synonyms.readers, cytoscape.data.writers, cytoscape.dialogs, cytoscape.dialogs.preferences, cytoscape.ding, cytoscape.giny, cytoscape.init, cytoscape.layout, cytoscape.plugin, cytoscape.util, cytoscape.util.shadegrown, cytoscape.util.swing, cytoscape.view, cytoscape.view.cytopanels, cytoscape.visual, cytoscape.visual.calculators, cytoscape.visual.mappings, cytoscape.visual.mappings.continuous, cytoscape.visual.mappings.discrete, cytoscape.visual.parsers, cytoscape.visual.ui

Class Hierarchy

• java.lang.Object
  • javax.swing.AbstractAction (implements javax.swing.Action, java.lang.Cloneable, java.io.Serializable)
    • cytoscape.actions.AlignHorizontalAction
    • cytoscape.actions.AlignVerticalAction
    • cytoscape.actions.AnimatedLayoutAction
    • cytoscape.util.CytoscapeAction
      • cytoscape.actions.AlphabeticalSelectionAction (implements java.awt.event.ActionListener)
      • cytoscape.data.annotation.AnnotationGui
      • cytoscape.actions.BackgroundColorAction
      • cytoscape.actions.BendSelectedEdgesAction
      • cytoscape.actions.BirdsEyeViewAction (implements java.beans.PropertyChangeListener)
      • cytoscape.actions.BookmarkAction
      • cytoscape.actions.CloneGraphInNewWindowAction
      • cytoscape.actions.CreateNetworkViewAction (implements java.beans.PropertyChangeListener)
      • cytoscape.actions.CytoPanelAction (implements cytoscape.view.cytopanels.CytoPanelListener)
      • cytoscape.actions.DeselectAllAction
      • cytoscape.actions.DeSelectAllEdgesAction
      • cytoscape.actions.DeSelectAllNodesAction
      • cytoscape.actions.DestroyNetworkAction
      • cytoscape.actions.DestroyNetworkViewAction
      • cytoscape.actions.DestroySelectedAction
      • cytoscape.actions.ExitAction
      • cytoscape.actions.ExportAction
      • cytoscape.actions.ExportAsGMLAction
      • cytoscape.actions.ExportAsGraphicsAction
      • cytoscape.actions.ExportAsInteractionsAction
      • cytoscape.actions.ExportAsXGMMLAction
      • cytoscape.actions.ExportEdgeAttributesAction
      • cytoscape.actions.ExportNodeAttributesAction
      • cytoscape.actions.ExportVizmapAction
      • cytoscape.actions.FitContentAction
      • cytoscape.actions.GraphObjectSelectionAction
      • cytoscape.actions.HideSelectedAction
      • cytoscape.actions.HideSelectedEdgesAction
      • cytoscape.actions.HideSelectedNodesAction
      • cytoscape.actions.ImportBioDataServerAction
      • cytoscape.actions.ImportEdgeAttributesAction
      • cytoscape.actions.ImportExpressionMatrixAction
      • cytoscape.actions.ImportGraphFileAction
      • cytoscape.actions.ImportNodeAttributesAction
      • cytoscape.actions.ImportVizmapAction
      • cytoscape.actions.InvertSelectedEdgesAction
      • cytoscape.actions.InvertSelectedNodesAction
      • cytoscape.actions.ListFromFileSelectionAction
      • cytoscape.actions.MapOntologyAction (implements java.beans.PropertyChangeListener)
      • cytoscape.actions.NewSessionAction
      • cytoscape.actions.NewWindowSelectedNodesEdgesAction
      • cytoscape.actions.NewWindowSelectedNodesOnlyAction
      • cytoscape.actions.OpenSessionAction
      • cytoscape.actions.PreferenceAction
      • cytoscape.actions.PrintAction
      • cytoscape.actions.ProxyServerAction
      • cytoscape.actions.SaveSessionAction
      • cytoscape.actions.SaveSessionAsAction
      • cytoscape.actions.SelectAllAction
      • cytoscape.actions.SelectAllEdgesAction
      • cytoscape.actions.SelectAllNodesAction
      • cytoscape.actions.SelectFirstNeighborsAction
      • cytoscape.actions.SetVisualPropertiesAction
      • cytoscape.actions.ShowAllAction
      • cytoscape.dialogs.ShrinkExpandGraph
      • cytoscape.actions.StraightenSelectedEdgesAction
      • cytoscape.actions.ToggleVisualMapperAction
      • cytoscape.actions.UnHideSelectedEdgesAction
      • cytoscape.actions.UnHideSelectedNodesAction
      • cytoscape.actions.ZoomAction
      • cytoscape.actions.ZoomSelectedAction
    • cytoscape.actions.DeleteSelectedAction
    • cytoscape.actions.EdgeManipulationAction
    • cytoscape.dialogs.ExpressionDataPopupTable.OKAction
    • cytoscape.dialogs.GinyEdgeControlDialog.OKAction
    • cytoscape.actions.HelpAboutAction
    • cytoscape.actions.HelpContactHelpDeskAction
    • cytoscape.dialogs.IconPopupButton.ApplyIconAction
    • cytoscape.dialogs.IconPopupButton.CancelIconAction
    • cytoscape.dialogs.LabelTextPanel.BoxAction
    • cytoscape.dialogs.NewStringPopupDialog.CancelAction
    • cytoscape.dialogs.NewStringPopupDialog.OkAction
    • cytoscape.visual.ui.PopupIconChooser.ApplyIconAction
    • cytoscape.visual.ui.PopupIconChooser.CancelIconAction
    • cytoscape.dialogs.PopupTextArea.OKAction
    • cytoscape.actions.RotateSelectedNodesAction
    • cytoscape.actions.UnHideSelectedAction
  • cytoscape.visual.calculators.AbstractCalculator (implements cytoscape.visual.calculators.Calculator)
    • cytoscape.visual.calculators.EdgeCalculator
      • cytoscape.visual.calculators.GenericEdgeArrowCalculator (implements cytoscape.visual.calculators.EdgeArrowCalculator)
        • cytoscape.visual.calculators.GenericEdgeSourceArrowCalculator (implements cytoscape.visual.calculators.EdgeArrowCalculator)
        • cytoscape.visual.calculators.GenericEdgeTargetArrowCalculator (implements cytoscape.visual.calculators.EdgeArrowCalculator)
      • cytoscape.visual.calculators.GenericEdgeColorCalculator (implements cytoscape.visual.calculators.EdgeColorCalculator)
      • cytoscape.visual.calculators.GenericEdgeFontFaceCalculator (implements cytoscape.visual.calculators.EdgeFontFaceCalculator)
      • cytoscape.visual.calculators.GenericEdgeFontSizeCalculator (implements cytoscape.visual.calculators.EdgeFontSizeCalculator)
      • cytoscape.visual.calculators.GenericEdgeLabelCalculator (implements cytoscape.visual.calculators.EdgeLabelCalculator)
      • cytoscape.visual.calculators.GenericEdgeLabelColorCalculator
      • cytoscape.visual.calculators.GenericEdgeLineTypeCalculator (implements cytoscape.visual.calculators.EdgeLineTypeCalculator)
      • cytoscape.visual.calculators.GenericEdgeToolTipCalculator (implements cytoscape.visual.calculators.EdgeToolTipCalculator)
    • cytoscape.visual.calculators.NodeCalculator
      • cytoscape.visual.calculators.GenericNodeColorCalculator (implements cytoscape.visual.calculators.NodeColorCalculator)
        • cytoscape.visual.calculators.GenericNodeBorderColorCalculator (implements cytoscape.visual.calculators.NodeColorCalculator)
        • cytoscape.visual.calculators.GenericNodeFillColorCalculator (implements cytoscape.visual.calculators.NodeColorCalculator)
      • cytoscape.visual.calculators.GenericNodeFontFaceCalculator (implements cytoscape.visual.calculators.NodeFontFaceCalculator)
      • cytoscape.visual.calculators.GenericNodeFontSizeCalculator (implements cytoscape.visual.calculators.NodeFontSizeCalculator)
      • cytoscape.visual.calculators.GenericNodeLabelCalculator (implements cytoscape.visual.calculators.NodeLabelCalculator)
      • cytoscape.visual.calculators.GenericNodeLabelColorCalculator (implements cytoscape.visual.calculators.NodeLabelColorCalculator)
      • cytoscape.visual.calculators.GenericNodeLabelPositionCalculator
      • cytoscape.visual.calculators.GenericNodeLineTypeCalculator (implements cytoscape.visual.calculators.NodeLineTypeCalculator)
      • cytoscape.visual.calculators.GenericNodeShapeCalculator (implements cytoscape.visual.calculators.NodeShapeCalculator)
      • cytoscape.visual.calculators.GenericNodeSizeCalculator (implements cytoscape.visual.calculators.NodeSizeCalculator)
        • cytoscape.visual.calculators.GenericNodeHeightCalculator (implements cytoscape.visual.calculators.NodeSizeCalculator)
        • cytoscape.visual.calculators.GenericNodeUniformSizeCalculator (implements cytoscape.visual.calculators.NodeSizeCalculator)
        • cytoscape.visual.calculators.GenericNodeWidthCalculator (implements cytoscape.visual.calculators.NodeSizeCalculator)
      • cytoscape.visual.calculators.GenericNodeToolTipCalculator (implements cytoscape.visual.calculators.NodeToolTipCalculator)
  • cytoscape.util.swing.AbstractCellEditor (implements javax.swing.CellEditor)
    • cytoscape.util.swing.JTreeTable.TreeTableCellEditor (implements javax.swing.table.TableCellEditor)
  • org.biojava.utils.AbstractChangeable (implements org.biojava.utils.Changeable)
    • cytoscape.data.ontology.Ontology (implements org.biojava.ontology.Ontology)
      • cytoscape.data.ontology.GeneOntology
    • cytoscape.data.ontology.OntologyTerm (implements org.biojava.ontology.OntologyTerm)
      • cytoscape.data.ontology.GOTerm
    • cytoscape.data.ontology.Triple (implements org.biojava.ontology.Triple)
  • cytoscape.data.readers.AbstractGraphReader (implements cytoscape.data.readers.GraphReader)
    • cytoscape.data.readers.GMLReader
    • cytoscape.data.readers.InteractionsReader
    • cytoscape.data.readers.XGMMLReader
  • javax.swing.table.AbstractTableModel (implements java.io.Serializable, javax.swing.table.TableModel)
    • javax.swing.table.DefaultTableModel (implements java.io.Serializable)
      • cytoscape.dialogs.NetworkMetaDataTableModel
    • cytoscape.dialogs.preferences.PluginsTableModel
    • cytoscape.dialogs.preferences.PreferenceTableModel
    • cytoscape.util.swing.TreeTableModelAdapter
  • cytoscape.util.swing.AbstractTreeTableModel (implements cytoscape.util.swing.TreeTableModel)
  • cytoscape.visual.mappings.continuous.AddPointListener (implements java.awt.event.ActionListener)
  • cytoscape.data.synonyms.Aliases
  • cytoscape.data.annotation.Annotation (implements java.io.Serializable)
  • cytoscape.data.annotation.AnnotationDescription (implements java.io.Serializable)
  • cytoscape.data.annotation.readers.AnnotationFlatFileReader
  • cytoscape.data.annotation.readers.AnnotationXmlReader
  • cytoscape.visual.Arrow (implements java.io.Serializable)
  • cytoscape.visual.parsers.ArrowParser (implements cytoscape.visual.parsers.ValueParser)
  • cytoscape.view.BasicGraphViewHandler (implements cytoscape.view.GraphViewHandler)
  • cytoscape.data.servers.BioDataServer
  • cytoscape.util.BioDataServerUtil
  • cytoscape.data.readers.BookmarkReader
  • cytoscape.util.BookmarksUtil
  • cytoscape.visual.mappings.BoundaryRangeValues
  • cytoscape.visual.CalculatorCatalog
  • cytoscape.visual.CalculatorCatalogFactory
  • cytoscape.visual.calculators.CalculatorFactory
  • cytoscape.visual.CalculatorIO
  • cytoscape.data.servers.clear
  • cytoscape.visual.parsers.ColorParser (implements cytoscape.visual.parsers.ValueParser)
  • coltginy.ColtGraphViewModel (implements giny.view.GraphView)
    • phoebe.PGraphView (implements giny.view.GraphView)
      • cytoscape.giny.PhoebeNetworkView (implements cytoscape.view.CyNetworkView)
  • cytoscape.util.swing.ColumnResizer
  • java.awt.Component (implements java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable)
    • java.awt.Container
      • javax.swing.JComponent (implements java.io.Serializable)
        • javax.swing.AbstractButton (implements java.awt.ItemSelectable, javax.swing.SwingConstants)
          • javax.swing.JButton (implements javax.accessibility.Accessible)
            • cytoscape.visual.ui.ValueDisplayer
          • javax.swing.JMenuItem (implements javax.accessibility.Accessible, javax.swing.MenuElement)
            • javax.swing.JMenu (implements javax.accessibility.Accessible, javax.swing.MenuElement)
              • cytoscape.actions.SelectionModeAction
        • cytoscape.view.InternalFrameComponent (implements java.awt.print.Printable)
        • javax.swing.JFileChooser (implements javax.accessibility.Accessible)
          • cytoscape.actions.CheckBoxFileChooser
          • cytoscape.actions.ExpFileChooser
        • javax.swing.JLabel (implements javax.accessibility.Accessible, javax.swing.SwingConstants)
          • javax.swing.DefaultListCellRenderer (implements javax.swing.ListCellRenderer, java.io.Serializable)
            • cytoscape.visual.ui.FontRenderer
        • javax.swing.JList (implements javax.accessibility.Accessible, javax.swing.Scrollable)
          • cytoscape.util.swing.FilterHistoryJList
        • javax.swing.JMenuBar (implements javax.accessibility.Accessible, javax.swing.MenuElement)
          • cytoscape.util.CytoscapeMenuBar
        • javax.swing.JPanel (implements javax.accessibility.Accessible)
          • cytoscape.data.servers.ui.AnotationPanel
          • cytoscape.dialogs.ColorScaleTable
          • cytoscape.visual.mappings.continuous.ContinuousLegend
          • cytoscape.visual.mappings.continuous.ContinuousUI (implements java.awt.event.ActionListener)
          • cytoscape.view.cytopanels.CytoPanelImp (implements javax.swing.event.ChangeListener, cytoscape.view.cytopanels.CytoPanel)
          • cytoscape.visual.ui.DefaultPanel (implements javax.swing.event.ChangeListener)
          • cytoscape.visual.mappings.discrete.DiscreteLegend
          • cytoscape.visual.mappings.discrete.DiscreteUI (implements javax.swing.event.ChangeListener)
          • cytoscape.visual.ui.FontChooser
          • cytoscape.dialogs.GraphObjectSelection (implements java.awt.event.ActionListener)
          • cytoscape.dialogs.IconPopupButton (implements java.awt.event.ActionListener)
          • cytoscape.dialogs.IntegerEntryField
          • cytoscape.dialogs.JointIntegerEntry
          • cytoscape.util.swing.JStatusBar
          • cytoscape.dialogs.LabelTextPanel
          • cytoscape.visual.mappings.LegendTable
          • cytoscape.data.servers.ui.ManifestfileSelectionPanel
          • cytoscape.view.NetworkPanel (implements java.beans.PropertyChangeListener, cytoscape.data.SelectEventListener, javax.swing.event.TreeSelectionListener)
          • cytoscape.dialogs.NewSlider
          • cytoscape.data.servers.ui.OboPanel
          • cytoscape.data.servers.ui.SelectFormatPanel
          • cytoscape.data.servers.ui.SpeciesPanel
          • cytoscape.visual.ui.VizMapTab
            • cytoscape.visual.ui.VizMapAttrTab
            • cytoscape.visual.ui.VizMapFontTab
            • cytoscape.visual.ui.VizMapSizeTab
        • javax.swing.JSlider (implements javax.accessibility.Accessible, javax.swing.SwingConstants)
          • cytoscape.dialogs.NewSlider.MJSlider (implements javax.swing.event.ChangeListener)
        • javax.swing.JSplitPane (implements javax.accessibility.Accessible)
          • cytoscape.view.cytopanels.BiModalJSplitPane (implements cytoscape.view.cytopanels.CytoPanelContainer)
        • javax.swing.JTable (implements javax.accessibility.Accessible, javax.swing.event.CellEditorListener, javax.swing.event.ListSelectionListener, javax.swing.Scrollable, javax.swing.event.TableColumnModelListener, javax.swing.event.TableModelListener)
          • cytoscape.util.swing.JTreeTable
        • javax.swing.text.JTextComponent (implements javax.accessibility.Accessible, javax.swing.Scrollable)
          • javax.swing.JTextField (implements javax.swing.SwingConstants)
            • cytoscape.dialogs.NewSlider.MJTextField (implements java.awt.event.ActionListener)
        • javax.swing.JToolBar (implements javax.accessibility.Accessible, javax.swing.SwingConstants)
          • cytoscape.util.CytoscapeToolBar
        • javax.swing.JTree (implements javax.accessibility.Accessible, javax.swing.Scrollable)
          • cytoscape.util.swing.JTreeTable.TreeTableCellRenderer (implements javax.swing.table.TableCellRenderer)
      • java.awt.Window (implements javax.accessibility.Accessible)
        • java.awt.Dialog
          • javax.swing.JDialog (implements javax.accessibility.Accessible, javax.swing.RootPaneContainer, javax.swing.WindowConstants)
            • cytoscape.data.AttributeSaverDialog
            • cytoscape.dialogs.preferences.BookmarkDialog (implements java.awt.event.ActionListener, java.awt.event.ItemListener, javax.swing.event.ListSelectionListener)
            • cytoscape.dialogs.preferences.BookmarkDialog.EditBookmarkDialog (implements java.awt.event.ActionListener)
            • cytoscape.dialogs.EdgeAttributesPopupDetails
            • cytoscape.dialogs.EditNetworkTitleDialog (implements java.awt.event.ActionListener)
            • cytoscape.dialogs.ExpressionDataPopupTable
            • cytoscape.dialogs.GinyEdgeControlDialog
            • cytoscape.dialogs.ImportAttributeMatrixDialog
            • cytoscape.dialogs.ImportNetworkDialog (implements java.awt.event.ActionListener)
            • cytoscape.util.IndeterminateProgressBar
            • cytoscape.visual.ui.LegendDialog
            • cytoscape.dialogs.NetworkMetaDataDialog (implements javax.swing.event.TableModelListener)
            • cytoscape.dialogs.NewStringPopupDialog
            • cytoscape.data.annotation.OntologyMapperDialog
            • cytoscape.visual.ui.PopupFontChooser
            • cytoscape.visual.ui.PopupLabelPositionChooser (implements java.beans.PropertyChangeListener)
            • cytoscape.dialogs.PopupTextArea
            • cytoscape.dialogs.preferences.PreferencesDialog (implements java.beans.PropertyChangeListener)
            • cytoscape.dialogs.preferences.PreferenceValueDialog
            • cytoscape.dialogs.preferences.ProxyServerDialog (implements java.awt.event.ActionListener, java.awt.event.ItemListener)
            • cytoscape.dialogs.URLimportAdvancedDialog (implements java.awt.event.ActionListener, java.awt.event.ItemListener, javax.swing.event.ListSelectionListener)
            • cytoscape.dialogs.URLimportAdvancedDialog.BookmarkDialog (implements java.awt.event.ActionListener)
            • cytoscape.dialogs.VisualStyleBuilderDialog
            • cytoscape.visual.ui.VizMapUI (implements cytoscape.CyNetworkListener)
            • cytoscape.visual.ui.VizMapUI.StyleSelector (implements javax.swing.event.ChangeListener)
        • java.awt.Frame (implements java.awt.MenuContainer)
          • javax.swing.JFrame (implements javax.accessibility.Accessible, javax.swing.RootPaneContainer, javax.swing.WindowConstants)
            • cytoscape.view.CytoscapeDesktop (implements java.beans.PropertyChangeListener)
            • cytoscape.util.CytoscapeProgressMonitor (implements java.lang.Runnable)
  • cytoscape.visual.mappings.continuous.ContinuousMappingPoint (implements java.lang.Cloneable)
  • cytoscape.visual.mappings.continuous.ContinuousMappingReader
  • cytoscape.visual.mappings.continuous.ContinuousMappingWriter
  • cytoscape.visual.mappings.continuous.ContinuousRangeCalculator
  • cytoscape.util.CreditScreen
  • cytoscape.data.CyAttributesImpl (implements cytoscape.data.CyAttributes)
  • cytoscape.data.readers.CyAttributesReader
  • cytoscape.data.CyAttributesUtils
  • cytoscape.data.writers.CyAttributesWriter
  • cytoscape.data.writers.CyAttributesWriter2
  • cytoscape.util.CyColorChooser
  • cytoscape.CyEdge (implements giny.model.Edge)
  • cytoscape.view.CyHelpBroker
  • cytoscape.CyMain (implements cytoscape.init.CyInitParams)
  • cytoscape.view.CyMenus (implements giny.view.GraphViewChangeListener)
  • cytoscape.CyNetworkAdapter (implements cytoscape.CyNetworkListener)
  • cytoscape.CyNetworkEvent
  • cytoscape.util.CyNetworkNaming
  • cytoscape.data.CyNetworkUtilities
  • cytoscape.CyNode (implements giny.model.Node)
  • cytoscape.view.cytopanels.CytoPanelState
  • cytoscape.view.cytopanels.CytoPanelUtil
  • cytoscape.Cytoscape
  • cytoscape.CytoscapeConfig
  • cytoscape.CytoscapeInit
  • cytoscape.CytoscapeModifiedNetworkManager (implements java.beans.PropertyChangeListener)
  • cytoscape.plugin.CytoscapePlugin (implements java.beans.PropertyChangeListener)
  • cytoscape.data.readers.CytoscapeSessionReader
  • cytoscape.data.writers.CytoscapeSessionWriter
  • cytoscape.CytoscapeVersion
  • cytoscape.data.ontology.readers.DBCrossReferenceReader
  • cytoscape.data.ontology.DBCrossReferences
  • cytoscape.data.ontology.DBReference
  • javax.swing.tree.DefaultMutableTreeNode (implements java.lang.Cloneable, javax.swing.tree.MutableTreeNode, java.io.Serializable)
    • cytoscape.view.NetworkPanel.NetworkTreeNode
  • cytoscape.visual.mappings.continuous.DeletePointListener (implements java.awt.event.ActionListener)
  • ding.view.DGraphView (implements giny.view.GraphView, java.awt.print.Printable)
    • cytoscape.ding.DingNetworkView (implements cytoscape.view.CyNetworkView)
  • cytoscape.visual.mappings.discrete.DiscreteMappingReader
  • cytoscape.visual.mappings.discrete.DiscreteMappingWriter
  • cytoscape.visual.mappings.discrete.DiscreteRangeCalculator
  • cytoscape.visual.parsers.DoubleParser (implements cytoscape.visual.parsers.ValueParser)
  • cytoscape.visual.EdgeAppearance (implements java.lang.Cloneable)
  • cytoscape.visual.EdgeAppearanceCalculator
  • cytoscape.util.Exec
  • cytoscape.data.ExpressionData (implements java.io.Serializable)
  • cytoscape.data.attr.util.ExtensibleMultiHashMapModel
  • javax.swing.filechooser.FileFilter
    • cytoscape.util.CyFileFilter (implements java.io.FilenameFilter)
      • cytoscape.util.GMLFileFilter
      • cytoscape.util.SIFFileFilter
      • cytoscape.util.XGMMLFileFilter
  • cytoscape.util.FileUtil
  • fing.model.FingExtensibleGraphPerspective
    • cytoscape.giny.FingCyNetwork (implements cytoscape.CyNetwork, giny.model.GraphPerspective)
  • fing.model.FingExtensibleRootGraph
    • cytoscape.giny.CytoscapeFingRootGraph (implements cytoscape.giny.CytoscapeRootGraph)
  • cytoscape.view.FlagAndSelectionHandler (implements cytoscape.data.FlagEventListener, giny.view.GraphViewChangeListener)
  • cytoscape.data.FlagEvent
  • cytoscape.data.FlagFilter (implements giny.filter.Filter, giny.model.GraphPerspectiveChangeListener)
  • cytoscape.visual.mappings.FlatInterpolator (implements cytoscape.visual.mappings.Interpolator)
  • cytoscape.data.annotation.FlattenIntVectors
  • java.awt.event.FocusAdapter (implements java.awt.event.FocusListener)
    • cytoscape.visual.mappings.continuous.PointTextListener
  • cytoscape.visual.parsers.FontParser (implements cytoscape.visual.parsers.ValueParser)
  • cytoscape.data.servers.ui.GeneOntologyWizard
  • cytoscape.dialogs.GeneralColorDialogListener (implements java.awt.event.ActionListener)
  • cytoscape.data.servers.getCanonicalName
  • cytoscape.data.servers.getCommonName
  • cytoscape.actions.GinyUtils
  • cytoscape.visual.GlobalAppearance
  • cytoscape.data.readers.GMLNode (implements java.util.Comparator<T>)
  • cytoscape.data.readers.GMLParser
  • cytoscape.data.readers.GMLTree
  • cytoscape.data.readers.GMLWriter
  • cytoscape.render.stateful.GraphLOD
    • cytoscape.ding.CyGraphLOD (implements java.beans.PropertyChangeListener)
  • cytoscape.util.GraphSetUtils
  • cytoscape.view.GraphViewController (implements giny.model.GraphPerspectiveChangeListener)
  • cytoscape.dialogs.GridBagGroup
  • cytoscape.visual.ui.IconSupport
  • cytoscape.data.ImportHandler
  • cytoscape.dialogs.IntegerEntryField.PositiveIntegerListener (implements java.awt.event.FocusListener)
  • cytoscape.data.Interaction
  • cytoscape.data.writers.InteractionWriter
  • cytoscape.visual.mappings.InterpolatorFactory
  • cytoscape.util.JnlpWriterUtil
  • cytoscape.dialogs.JointIntegerEntry.CopyField1To2Listener (implements java.awt.event.FocusListener)
  • cytoscape.dialogs.JointIntegerEntry.LockedItemListener (implements java.awt.event.ItemListener)
  • cytoscape.data.readers.KeyValue
  • cytoscape.visual.LabelPosition
  • cytoscape.visual.parsers.LabelPositionParser (implements cytoscape.visual.parsers.ValueParser)
  • cytoscape.visual.LineType (implements java.io.Serializable)
  • cytoscape.visual.parsers.LineTypeParser (implements cytoscape.visual.parsers.ValueParser)
  • cytoscape.data.servers.loadAnnotation
  • cytoscape.data.servers.loadAnnotationFromFlatFiles
  • cytoscape.actions.LoadNetworkTask (implements cytoscape.task.Task)
  • cytoscape.data.servers.loadThesaurus
  • cytoscape.util.MacAppConfig
  • cytoscape.visual.ui.MapperAndAttribute
  • cytoscape.visual.mappings.MappingFactory
  • cytoscape.visual.mappings.MappingUtil
  • cytoscape.data.readers.MetadataParser
  • cytoscape.util.MinMaxDouble
  • cytoscape.util.MinMaxInt
  • cytoscape.util.Misc
  • cytoscape.visual.ui.MiscDialog
  • cytoscape.dialogs.MiscGB
  • cytoscape.data.mRNAMeasurement (implements java.io.Serializable)
  • cytoscape.data.attr.util.MultiHashMapFactory
  • cytoscape.data.attr.util.MultiHashMapHelpers
  • cytoscape.util.MutableBool
  • cytoscape.util.MutableColor
  • cytoscape.util.MutableInt
  • cytoscape.util.MutableString
  • cytoscape.data.NetworkData
  • cytoscape.view.NetworkViewManager (implements javax.swing.event.ChangeListener, javax.swing.event.InternalFrameListener, java.beans.PropertyChangeListener, java.awt.event.WindowFocusListener)
  • cytoscape.visual.NodeAppearance (implements java.lang.Cloneable)
  • cytoscape.visual.NodeAppearanceCalculator
  • cytoscape.visual.parsers.NodeShapeParser (implements cytoscape.visual.parsers.ValueParser)
  • cytoscape.visual.mappings.NumberInterpolator (implements cytoscape.visual.mappings.Interpolator)
    • cytoscape.visual.mappings.LinearNumberInterpolator
      • cytoscape.visual.mappings.LinearNumberToColorInterpolator
      • cytoscape.visual.mappings.LinearNumberToNumberInterpolator
  • cytoscape.visual.parsers.ObjectToString
  • cytoscape.data.ontology.readers.OBOFlatFileReader (implements cytoscape.data.ontology.readers.OntologyReader)
  • cytoscape.visual.OldStyleCalculatorIO
  • cytoscape.data.annotation.Ontology (implements java.io.Serializable)
  • cytoscape.data.annotation.OntologyDescription (implements java.io.Serializable)
  • cytoscape.data.ontology.OntologyFactory
  • cytoscape.data.annotation.readers.OntologyFlatFileReader
  • cytoscape.data.servers.OntologyServer (implements java.beans.PropertyChangeListener)
  • cytoscape.data.annotation.OntologyTerm (implements java.io.Serializable)
  • cytoscape.data.annotation.readers.OntologyXmlReader
  • cytoscape.util.OpenBrowser
  • cytoscape.visual.parsers.ParserFactory
  • cytoscape.visual.mappings.PassThroughMapping (implements cytoscape.visual.mappings.ObjectMapping)
  • cytoscape.util.PercentUtil
  • cytoscape.dialogs.PhoebeNodeControl
  • cytoscape.dialogs.PhoebeNodeControl.SliderListener (implements javax.swing.event.ChangeListener)
  • cytoscape.visual.ui.PopupIconChooser
  • cytoscape.visual.ui.PopupStringChooser
  • cytoscape.util.ProxyHandler (implements java.beans.PropertyChangeListener)
  • cytoscape.visual.mappings.discrete.RandomColorListener (implements java.awt.event.ActionListener)
  • java.rmi.server.RemoteObject (implements java.rmi.Remote, java.io.Serializable)
    • java.rmi.server.RemoteServer
      • java.rmi.server.UnicastRemoteObject
        • cytoscape.data.servers.BioDataServerRmi (implements cytoscape.data.servers.BioDataServerInterface, java.io.Serializable)
  • cytoscape.data.SelectEvent
  • cytoscape.data.SelectFilter (implements giny.filter.Filter, giny.model.GraphPerspectiveChangeListener)
  • cytoscape.data.Semantics
  • cytoscape.visual.ShapeNodeRealizer
  • cytoscape.dialogs.ShrinkExpandGraphUI
  • cytoscape.data.servers.status
  • cytoscape.visual.parsers.StringParser (implements cytoscape.visual.parsers.ValueParser)
  • cytoscape.visual.SubjectBase
    • cytoscape.visual.mappings.ContinuousMapping (implements cytoscape.visual.mappings.ObjectMapping)
    • cytoscape.visual.mappings.DiscreteMapping (implements cytoscape.visual.mappings.ObjectMapping)
    • cytoscape.visual.GlobalAppearanceCalculator (implements java.lang.Cloneable)
    • cytoscape.visual.VisualMappingManager
  • cytoscape.util.SwingWorker
  • cytoscape.data.readers.TextFileReader
  • cytoscape.data.readers.TextHttpReader
  • cytoscape.data.readers.TextJarReader
  • cytoscape.data.synonyms.Thesaurus (implements java.io.Serializable)
  • cytoscape.data.synonyms.readers.ThesaurusFlatFileReader
  • java.lang.Throwable (implements java.io.Serializable)
    • java.lang.Exception
      • cytoscape.plugin.NotAPluginException
      • java.lang.RuntimeException
        • cytoscape.visual.DuplicateCalculatorNameException
        • cytoscape.data.readers.GMLException
        • cytoscape.data.readers.XGMMLException
  • cytoscape.util.Transform
  • cytoscape.util.UndoManager
  • cytoscape.util.URLUtil
  • cytoscape.visual.mappings.discrete.ValueChangeListener (implements java.awt.event.ItemListener)
  • cytoscape.visual.mappings.continuous.ValueListener (implements java.awt.event.ItemListener)
  • cytoscape.visual.VisualStyle (implements java.lang.Cloneable)
  • cytoscape.data.readers.VisualStyleBuilder
  • cytoscape.visual.ui.VizMapBypassNetworkListener (implements java.beans.PropertyChangeListener)
  • cytoscape.visual.ui.VizUIUtilities
  • cytoscape.util.shadegrown.WindowUtilities (implements javax.swing.WindowConstants)
  • com.nexes.wizard.WizardPanelDescriptor
    • cytoscape.data.servers.ui.AnotationPanelDescriptor (implements java.awt.event.ActionListener)
    • cytoscape.data.servers.ui.ManifestFileSelectionPanelDescriptor (implements java.awt.event.ActionListener)
    • cytoscape.data.servers.ui.OboPanelDescriptor (implements java.awt.event.ActionListener)
    • cytoscape.data.servers.ui.SelectFormatPanelDescriptor
    • cytoscape.data.servers.ui.SpeciesPanelDescriptor
  • cytoscape.data.writers.XGMMLWriter
  • cytoscape.util.ZipUtil

Interface Hierarchy

• cytoscape.data.AttributeFilter
• cytoscape.data.AttributeValueVisitor
• java.lang.Cloneable
  • cytoscape.visual.calculators.Calculator
    • cytoscape.visual.calculators.EdgeArrowCalculator
    • cytoscape.visual.calculators.EdgeColorCalculator
    • cytoscape.visual.calculators.EdgeFontFaceCalculator
    • cytoscape.visual.calculators.EdgeFontSizeCalculator
    • cytoscape.visual.calculators.EdgeLabelCalculator
    • cytoscape.visual.calculators.EdgeLineTypeCalculator
    • cytoscape.visual.calculators.EdgeToolTipCalculator
    • cytoscape.visual.calculators.NodeColorCalculator
    • cytoscape.visual.calculators.NodeFontFaceCalculator
    • cytoscape.visual.calculators.NodeFontSizeCalculator
    • cytoscape.visual.calculators.NodeLabelCalculator
    • cytoscape.visual.calculators.NodeLabelColorCalculator
    • cytoscape.visual.calculators.NodeLineTypeCalculator
    • cytoscape.visual.calculators.NodeShapeCalculator
    • cytoscape.visual.calculators.NodeSizeCalculator
    • cytoscape.visual.calculators.NodeToolTipCalculator
  • cytoscape.visual.mappings.ObjectMapping
• cytoscape.data.CyAttributes
• cytoscape.init.CyInitParams
• cytoscape.CyNetworkData
• cytoscape.CyNetworkListener
• cytoscape.view.cytopanels.CytoPanel
• cytoscape.view.cytopanels.CytoPanelContainer
• giny.view.EdgeView
  • cytoscape.view.CyEdgeView
• java.util.EventListener
  • cytoscape.view.cytopanels.CytoPanelListener
• cytoscape.data.FlagEventListener
• giny.model.GraphPerspective
  • cytoscape.CyNetwork
• cytoscape.data.readers.GraphReader
• giny.view.GraphView
  • cytoscape.view.CyNetworkView
• cytoscape.view.GraphViewHandler
• cytoscape.visual.mappings.Interpolator
• java.util.Iterator<E>
  • cytoscape.data.attr.CountedIterator
• cytoscape.util.MonitoredTask
  • cytoscape.layout.LayoutAlgorithm
• cytoscape.data.attr.MultiHashMap
• cytoscape.data.attr.MultiHashMapDefinition
• cytoscape.data.attr.MultiHashMapDefinitionListener
• cytoscape.data.attr.MultiHashMapListener
• cytoscape.view.NetworkView
• giny.view.NodeView
  • cytoscape.view.CyNodeView
• cytoscape.data.ontology.readers.OntologyReader
• java.rmi.Remote
  • cytoscape.data.servers.BioDataServerInterface
• giny.model.RootGraph
  • cytoscape.giny.CytoscapeRootGraph
• cytoscape.data.SelectEventListener
• javax.swing.tree.TreeModel
  • cytoscape.util.swing.TreeTableModel
• cytoscape.visual.parsers.ValueParser

Enum Hierarchy

• java.lang.Object
  • java.lang.Enum<E> (implements java.lang.Comparable<T>, java.io.Serializable)
    • cytoscape.data.ontology.GeneOntology.GOAspect
    • cytoscape.data.ontology.OntologyTerm.SynonymType
    • cytoscape.data.ontology.readers.DBXrefKeywords
    • cytoscape.data.ontology.readers.OBOTags
    • cytoscape.data.ontology.readers.OBOHeaderTags
    • cytoscape.data.readers.MetadataEntries
    • cytoscape.data.servers.OntologyServer.OntologyType
    • cytoscape.data.synonyms.AliasType