Overview | Package | Class | Use | Tree | Deprecated | Index | Help
PREV LETTER NEXT LETTER | FRAMES NO FRAMES

A B C D E F G H I J K L M N O P Q R S T U V W X Z

## I

icon - Variable in class info.bioinfweb.treegraph.document.format.IconLabelFormats
icon - Variable in class info.bioinfweb.treegraph.document.format.operate.IconOperator
icon - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.piecolor.PieColorCellRenderer
ICON_COLOR - Static variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.IconPreviewPanel
ICON_DOMENSION - Static variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.piecolor.PieColorIcon
iconComboBox - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.IconPieChartLabelPanel
iconFilled - Variable in class info.bioinfweb.treegraph.document.format.IconLabelFormats
iconFilled - Variable in class info.bioinfweb.treegraph.document.format.operate.IconFilledOperator
iconFilledCheckBox - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.IconPieChartLabelPanel
iconFilledMonitor - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.IconPieChartLabelPanel
IconFilledOperator - Class in info.bioinfweb.treegraph.document.format.operate
IconFilledOperator(boolean) - Constructor for class info.bioinfweb.treegraph.document.format.operate.IconFilledOperator
IconHeightAdapter - Class in info.bioinfweb.treegraph.document.format.adapters.distance
IconHeightAdapter(String) - Constructor for class info.bioinfweb.treegraph.document.format.adapters.distance.IconHeightAdapter
iconHeightInput - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.IconPieChartLabelPanel
IconLabel - Class in info.bioinfweb.treegraph.document
IconLabel(Labels) - Constructor for class info.bioinfweb.treegraph.document.IconLabel
IconLabelFormats - Class in info.bioinfweb.treegraph.document.format
IconLabelFormats(Label, boolean, int, int) - Constructor for class info.bioinfweb.treegraph.document.format.IconLabelFormats
IconLabelFormats(Label) - Constructor for class info.bioinfweb.treegraph.document.format.IconLabelFormats
iconMonitor - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.IconPieChartLabelPanel
IconOperator - Class in info.bioinfweb.treegraph.document.format.operate
IconOperator(String) - Constructor for class info.bioinfweb.treegraph.document.format.operate.IconOperator
iconPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.IconPieChartLabelPanel
IconPieChartLabelPanel - Class in info.bioinfweb.treegraph.gui.dialogs.elementformats
  Panel of the `ElementFormatsDialog` used to edit the icon label color.
IconPieChartLabelPanel() - Constructor for class info.bioinfweb.treegraph.gui.dialogs.elementformats.IconPieChartLabelPanel
  This is the default constructor
iconPreviewPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.IconPieChartLabelPanel
IconPreviewPanel - Class in info.bioinfweb.treegraph.gui.dialogs.elementformats
  Panel used to display a preview of the formatted icon in the `IconPieChartLabelPanel` of the `ElementFormatsDialog`.
IconPreviewPanel() - Constructor for class info.bioinfweb.treegraph.gui.dialogs.elementformats.IconPreviewPanel
IconWidthAdapter - Class in info.bioinfweb.treegraph.document.format.adapters.distance
IconWidthAdapter(String) - Constructor for class info.bioinfweb.treegraph.document.format.adapters.distance.IconWidthAdapter
iconWidthInput - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.IconPieChartLabelPanel
id - Variable in class info.bioinfweb.treegraph.document.Label
id - Variable in class info.bioinfweb.treegraph.document.nodebranchdata.AbstractIDElementAdapter
id() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.labelicons.CrossIcon
id() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.labelicons.EllipseIcon
id() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.labelicons.HexagonIcon
id() - Method in interface info.bioinfweb.treegraph.graphics.positionpaint.labelicons.LabelIcon
id() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.labelicons.OctagonIcon
id() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.labelicons.RectangleIcon
id() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.labelicons.RoundRectangleIcon
ID - Static variable in class info.bioinfweb.treegraph.graphics.positionpaint.labelicons.StarIcon
id() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.labelicons.StarIcon
id() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.labelicons.TitedCrossIcon
id() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.labelicons.TitedHexagonIcon
id() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.labelicons.TriangleIcon
id() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.labelicons.UnknownIcon
  Returns `null`.
id - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.piecolor.PieColorListEntry
id - Variable in class info.bioinfweb.treegraph.gui.dialogs.specialformats.AbstractLabelAdapter
ID_PREFIX - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants
idComboBox - Variable in class info.bioinfweb.treegraph.gui.dialogs.editelement.ChangeIDDialog
idComboBox - Variable in class info.bioinfweb.treegraph.gui.dialogs.editelement.NewGraphicalLabelsDialog
idComboBox - Variable in class info.bioinfweb.treegraph.gui.dialogs.editelement.NewTextLabelDialog
IDElementAdapter - Interface in info.bioinfweb.treegraph.document.nodebranchdata
  This interface should be implemented by all node data adapters that store an ID.
idExists(Node, String) - Static method in class info.bioinfweb.treegraph.document.IDManager
IDFunction - Class in info.bioinfweb.treegraph.document.undo.edit.calculatecolumn
IDFunction() - Constructor for class info.bioinfweb.treegraph.document.undo.edit.calculatecolumn.IDFunction
idIsValid(String) - Static method in class info.bioinfweb.treegraph.document.Label
idIterator() - Method in class info.bioinfweb.treegraph.document.HiddenDataMap
idLabel - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.AssignImportColumnsDialog
idList - Variable in class info.bioinfweb.treegraph.gui.dialogs.editelement.NewPieChartLabelsDialog
idList - Variable in class info.bioinfweb.treegraph.gui.dialogs.nodebranchdata.RenameIDDialog
idListScrollPane - Variable in class info.bioinfweb.treegraph.gui.dialogs.editelement.NewPieChartLabelsDialog
IDManager - Class in info.bioinfweb.treegraph.document
IDManager() - Constructor for class info.bioinfweb.treegraph.document.IDManager
idNamePanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog
idNameTextField - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog
idPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.editelement.ChangeIDDialog
idPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.editelement.NewGraphicalLabelsDialog
idPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.editelement.NewTextLabelDialog
idPattern - Static variable in class info.bioinfweb.treegraph.document.Label
ids - Variable in class info.bioinfweb.treegraph.document.undo.format.AutoPositionLabelsEdit
ignoreWhitespaces - Variable in class info.bioinfweb.treegraph.document.undo.file.ApplyNameTableEdit
IMAGE_OPTION - Static variable in class info.bioinfweb.treegraph.cmd.CmdProcessor
ImageGenerator - Class in info.bioinfweb.treegraph.cmd
ImageGenerator() - Constructor for class info.bioinfweb.treegraph.cmd.ImageGenerator
importButtonGroup - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog
importData(NodeBranchDataAdapter[], String[][]) - Method in class info.bioinfweb.treegraph.document.undo.file.ImportTableEdit
importPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog
importPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.AssignImportColumnsDialog
ImportTableAction - Class in info.bioinfweb.treegraph.gui.actions.file
ImportTableAction(MainFrame) - Constructor for class info.bioinfweb.treegraph.gui.actions.file.ImportTableAction
importTableDialog - Variable in class info.bioinfweb.treegraph.gui.actions.file.ImportTableAction
ImportTableDialog - Class in info.bioinfweb.treegraph.gui.dialogs.io
ImportTableDialog(Frame) - Constructor for class info.bioinfweb.treegraph.gui.dialogs.io.ImportTableDialog
ImportTableEdit - Class in info.bioinfweb.treegraph.document.undo.file
ImportTableEdit(Document, String[][], NodeBranchDataAdapter[]) - Constructor for class info.bioinfweb.treegraph.document.undo.file.ImportTableEdit
includeHiddenCheckBox - Variable in class info.bioinfweb.treegraph.gui.dialogs.SearchTextDialog
includeInternalNodeNames() - Method in class info.bioinfweb.treegraph.gui.dialogs.SearchTextDialog
includeLeafs - Variable in class info.bioinfweb.treegraph.document.undo.edit.CopyColumnEdit
includeLeafsCheckBox - Variable in class info.bioinfweb.treegraph.gui.dialogs.nodebranchdata.CopyColumnDialog
incRadioButton - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel
increaseGroup - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel
increaseMonitor - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel
increasing - Variable in class info.bioinfweb.treegraph.document.format.ScaleBarFormats
index - Variable in class info.bioinfweb.treegraph.document.undo.edit.CollapseNodeEdit
index - Variable in class info.bioinfweb.treegraph.document.undo.edit.InsertRemoveSubtreeEdit
index - Variable in class info.bioinfweb.treegraph.document.undo.edit.SeparateBranchEdit
INDEX_END_SYMBOL - Static variable in class info.bioinfweb.treegraph.document.io.newick.CommentDataReader
INDEX_START_SYMBOL - Static variable in class info.bioinfweb.treegraph.document.io.newick.CommentDataReader
indexOf(Label) - Method in class info.bioinfweb.treegraph.document.LabelLine
indexOf(Legend) - Method in class info.bioinfweb.treegraph.document.Legends
info.bioinfweb.treegraph - package info.bioinfweb.treegraph
  All classes of the TreeGraph 2 application are contained in this package or one of its subpackeges.
info.bioinfweb.treegraph.cmd - package info.bioinfweb.treegraph.cmd
  Contains classes that process the command line arguments for TreeGraph 2.
info.bioinfweb.treegraph.document - package info.bioinfweb.treegraph.document
  Contains the classes that represent the data structure of TreeGraph 2 (document elements and formats) as well as all edit operations in the `undo`-package to manipulate the data structure and classes to read and write a document from and to different formats (`io`- subpackage).
info.bioinfweb.treegraph.document.clipboard - package info.bioinfweb.treegraph.document.clipboard
  Classes in this package implement the clipboard of TreeGraph 2 used to copy document elements (subtrees, labels, legends, ...) between and inside tree documents.
info.bioinfweb.treegraph.document.format - package info.bioinfweb.treegraph.document.format
  Contains classes that store format information of the different document elements.
info.bioinfweb.treegraph.document.format.adapters.color - package info.bioinfweb.treegraph.document.format.adapters.color
info.bioinfweb.treegraph.document.format.adapters.distance - package info.bioinfweb.treegraph.document.format.adapters.distance
info.bioinfweb.treegraph.document.format.operate - package info.bioinfweb.treegraph.document.format.operate
  Format operators are used to change single formats of document elements.
info.bioinfweb.treegraph.document.io - package info.bioinfweb.treegraph.document.io
  Contains classes necessary to read and write the data structure of a TreeGraph 2 document from and to different formats.
info.bioinfweb.treegraph.document.io.log - package info.bioinfweb.treegraph.document.io.log
  Classes related to logging messages of document readers are contained in this package.
info.bioinfweb.treegraph.document.io.newick - package info.bioinfweb.treegraph.document.io.newick
  Contains classes implementing the import from and export to the Newick format.
info.bioinfweb.treegraph.document.io.nexus - package info.bioinfweb.treegraph.document.io.nexus
  Contains classes implementing the import from and export to the Nexus format.
info.bioinfweb.treegraph.document.io.phyloxml - package info.bioinfweb.treegraph.document.io.phyloxml
  Contains classes implementing the import from the phyloXML format.
info.bioinfweb.treegraph.document.io.tgf - package info.bioinfweb.treegraph.document.io.tgf
  The classes in this package were planned to allow the import of TGF files into TreeGraph 2.
info.bioinfweb.treegraph.document.io.xtg - package info.bioinfweb.treegraph.document.io.xtg
  Contains classes implementing reading and writing of TreeGraph 2 documents.
info.bioinfweb.treegraph.document.nodebranchdata - package info.bioinfweb.treegraph.document.nodebranchdata
  Contains classes that implement the access to different data fields of the document elements over the common interface `NodeBranchDataAdapter`.
info.bioinfweb.treegraph.document.position - package info.bioinfweb.treegraph.document.position
  Contains classes used by the positioners and painters (see package `info.bioinfweb.treegraph.graphics.positionpaint`) to store information about the positions where the document elements will be painted.
info.bioinfweb.treegraph.document.undo - package info.bioinfweb.treegraph.document.undo
  Contains all document edits to manipulate the TreeGraph 2 data structure.
info.bioinfweb.treegraph.document.undo.edit - package info.bioinfweb.treegraph.document.undo.edit
info.bioinfweb.treegraph.document.undo.edit.calculatecolumn - package info.bioinfweb.treegraph.document.undo.edit.calculatecolumn
info.bioinfweb.treegraph.document.undo.file - package info.bioinfweb.treegraph.document.undo.file
info.bioinfweb.treegraph.document.undo.file.addsupportvalues - package info.bioinfweb.treegraph.document.undo.file.addsupportvalues
info.bioinfweb.treegraph.document.undo.format - package info.bioinfweb.treegraph.document.undo.format
info.bioinfweb.treegraph.graphics.export - package info.bioinfweb.treegraph.graphics.export
  The classes in this package implement the export of a tree document to the different supported graphic formats.
info.bioinfweb.treegraph.graphics.export.emf - package info.bioinfweb.treegraph.graphics.export.emf
  The classes of this package implement exporting trees to a Windows Enhanced Metafile (EMF).
info.bioinfweb.treegraph.graphics.export.jpeg - package info.bioinfweb.treegraph.graphics.export.jpeg
  The classes of this package implement exporting trees to the JPEG File Interchange Format.
info.bioinfweb.treegraph.graphics.export.pdf - package info.bioinfweb.treegraph.graphics.export.pdf
  The classes of this package implement exporting trees to the Portable Document Format (PDF).
info.bioinfweb.treegraph.graphics.export.png - package info.bioinfweb.treegraph.graphics.export.png
  The classes of this package implement exporting trees as Portable network graphics (PNG).
info.bioinfweb.treegraph.graphics.export.svg - package info.bioinfweb.treegraph.graphics.export.svg
  The classes of this package implement exporting trees as Scalable vector graphics (SVG).
info.bioinfweb.treegraph.graphics.export.tiff - package info.bioinfweb.treegraph.graphics.export.tiff
  The classes of this package implement exporting trees to the Tagged Image File Format (TIFF).
info.bioinfweb.treegraph.graphics.positionpaint - package info.bioinfweb.treegraph.graphics.positionpaint
  The classes in this package implement the output of an TreeGraph 2 document with `Graphics2D`.
info.bioinfweb.treegraph.graphics.positionpaint.labelicons - package info.bioinfweb.treegraph.graphics.positionpaint.labelicons
info.bioinfweb.treegraph.gui - package info.bioinfweb.treegraph.gui
  Contains the TreeGraph 2 GUI.
info.bioinfweb.treegraph.gui.actions - package info.bioinfweb.treegraph.gui.actions
  Contains the actions classes used in the TreeGraph 2 GUI.
info.bioinfweb.treegraph.gui.actions.edit - package info.bioinfweb.treegraph.gui.actions.edit
info.bioinfweb.treegraph.gui.actions.file - package info.bioinfweb.treegraph.gui.actions.file
info.bioinfweb.treegraph.gui.actions.format - package info.bioinfweb.treegraph.gui.actions.format
info.bioinfweb.treegraph.gui.actions.help - package info.bioinfweb.treegraph.gui.actions.help
info.bioinfweb.treegraph.gui.actions.select - package info.bioinfweb.treegraph.gui.actions.select
info.bioinfweb.treegraph.gui.actions.view - package info.bioinfweb.treegraph.gui.actions.view
info.bioinfweb.treegraph.gui.actions.window - package info.bioinfweb.treegraph.gui.actions.window
info.bioinfweb.treegraph.gui.dialogs - package info.bioinfweb.treegraph.gui.dialogs
  Contains dialogs of the TreeGraph 2 GUI.
info.bioinfweb.treegraph.gui.dialogs.editelement - package info.bioinfweb.treegraph.gui.dialogs.editelement
info.bioinfweb.treegraph.gui.dialogs.elementformats - package info.bioinfweb.treegraph.gui.dialogs.elementformats
info.bioinfweb.treegraph.gui.dialogs.elementformats.piecolor - package info.bioinfweb.treegraph.gui.dialogs.elementformats.piecolor
info.bioinfweb.treegraph.gui.dialogs.io - package info.bioinfweb.treegraph.gui.dialogs.io
info.bioinfweb.treegraph.gui.dialogs.io.exporttographic - package info.bioinfweb.treegraph.gui.dialogs.io.exporttographic
info.bioinfweb.treegraph.gui.dialogs.io.loadlogger - package info.bioinfweb.treegraph.gui.dialogs.io.loadlogger
info.bioinfweb.treegraph.gui.dialogs.nodebranchdata - package info.bioinfweb.treegraph.gui.dialogs.nodebranchdata
info.bioinfweb.treegraph.gui.dialogs.nodebranchdatainput - package info.bioinfweb.treegraph.gui.dialogs.nodebranchdatainput
info.bioinfweb.treegraph.gui.dialogs.specialformats - package info.bioinfweb.treegraph.gui.dialogs.specialformats
info.bioinfweb.treegraph.gui.mainframe - package info.bioinfweb.treegraph.gui.mainframe
  Contains all classes directly related to the main frame.
info.bioinfweb.treegraph.gui.mainframe.tools - package info.bioinfweb.treegraph.gui.mainframe.tools
info.bioinfweb.treegraph.gui.treeframe - package info.bioinfweb.treegraph.gui.treeframe
  Contains all classes that make up a document window.
info.bioinfweb.treegraph.gui.treeframe.ruler - package info.bioinfweb.treegraph.gui.treeframe.ruler
inheritToTerminals - Variable in class info.bioinfweb.treegraph.document.undo.format.ColorsByNodeBranchDataEdit
inheritToTerminals - Variable in class info.bioinfweb.treegraph.document.undo.format.DistanceValuesByNodeBranchDataEdit
inheritToTerminalsCheckBox - Variable in class info.bioinfweb.treegraph.gui.dialogs.specialformats.ColorsByNodeBranchDataDialog
inheritToTerminalsCheckBox - Variable in class info.bioinfweb.treegraph.gui.dialogs.specialformats.DistanceValuesByNodeBranchDataDialog
init(boolean) - Method in class info.bioinfweb.treegraph.document.Document
init() - Method in class info.bioinfweb.treegraph.document.format.TextLabelFormats
INITIAL_CAPACITY - Static variable in class info.bioinfweb.treegraph.document.LabelLine
INITIAL_CAPACITY - Static variable in class info.bioinfweb.treegraph.document.Labels
initialFile - Variable in class info.bioinfweb.treegraph.cmd.CmdProcessor
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.AboutDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.ChangeIDDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.EditBranchLengthDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.EditTextElementDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.NewIconLabelsDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.NewPieChartLabelsDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.editelement.NewTextLabelDialog
  This method initializes this dialog
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.BranchPanel
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatPanel
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ElementFormatsDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontFormatsPanel
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.IconPieChartLabelPanel
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LabelPanel
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LegendPanel
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LinePanel
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.NodeMarginPanel
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.GlobalFormatsDialog
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.ApplyNameTableDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.AssignImportColumnsDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.ExportTableDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.exporttographic.ExportToGraphicDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.exporttographic.JPEGPrefPanel
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.exporttographic.TIFFPrefPanel
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.exporttographic.TransparentBgPrefPanel
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.ExportToNewickStringDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.ImportTableDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.loadlogger.LoadLoggerDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.NewickExceptionDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.OpenDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.TableSeparatorPanel
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.TreeSelectionDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.nodebranchdata.CalculateColumnDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.nodebranchdata.CopyColumnDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.nodebranchdata.IntervalDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.nodebranchdata.RenameIDDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.ReplaceInNodeDataDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.ScaleBranchLengthsDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.SearchTextDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.specialformats.ColorsByNodeBranchDataDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.specialformats.DistanceValuesByNodeBranchDataDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.dialogs.specialformats.ScaleDistanceValuesDialog
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.mainframe.tools.DistanceValuePopup
  This method initializes this
initialize() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeInternalFrame
  This method initializes this
initLabel(String, JPanel, int) - Method in class info.bioinfweb.treegraph.gui.dialogs.MarginInput
initLabelFormats() - Method in class info.bioinfweb.treegraph.document.io.tgf.TGFReader
initSets() - Method in class info.bioinfweb.treegraph.document.Document
input - Variable in class info.bioinfweb.treegraph.gui.mainframe.tools.DistanceValuePopup
inputListeners - Variable in class info.bioinfweb.treegraph.gui.dialogs.nodebranchdatainput.NewNodeBranchDataInput
inputPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.editelement.EditBranchLengthDialog
inputs - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.AssignImportColumnsDialog
inScaleUnits - Variable in class info.bioinfweb.treegraph.document.format.ScaleValue
insert(Label) - Method in class info.bioinfweb.treegraph.document.LabelLine
insert(Legend) - Method in class info.bioinfweb.treegraph.document.Legends
  Inserts the specified legend to the list and calls `l.setLegends(this)`.
insert() - Method in class info.bioinfweb.treegraph.document.undo.edit.InsertRemoveLabelEdit
insert() - Method in class info.bioinfweb.treegraph.document.undo.edit.InsertRemoveLegendEdit
insert() - Method in class info.bioinfweb.treegraph.document.undo.edit.InsertRemoveSubtreeEdit
insertGroup - Variable in class info.bioinfweb.treegraph.gui.dialogs.ReplaceInNodeDataDialog
InsertLabelEdit - Class in info.bioinfweb.treegraph.document.undo.edit
InsertLabelEdit(Document, Label, Labels) - Constructor for class info.bioinfweb.treegraph.document.undo.edit.InsertLabelEdit
InsertLabelsEdit - Class in info.bioinfweb.treegraph.document.undo.edit
  Used to insert multiple labels and one or more branches.
InsertLabelsEdit(Document, Label, Branch[]) - Constructor for class info.bioinfweb.treegraph.document.undo.edit.InsertLabelsEdit
InsertLegendEdit - Class in info.bioinfweb.treegraph.document.undo.edit
InsertLegendEdit(Document, Legend, Node, Node) - Constructor for class info.bioinfweb.treegraph.document.undo.edit.InsertLegendEdit
InsertRemoveLabelEdit - Class in info.bioinfweb.treegraph.document.undo.edit
InsertRemoveLabelEdit(Document, Label, Labels) - Constructor for class info.bioinfweb.treegraph.document.undo.edit.InsertRemoveLabelEdit
InsertRemoveLegendEdit - Class in info.bioinfweb.treegraph.document.undo.edit
InsertRemoveLegendEdit(Document, Legend, Node, Node) - Constructor for class info.bioinfweb.treegraph.document.undo.edit.InsertRemoveLegendEdit
InsertRemoveSubtreeEdit - Class in info.bioinfweb.treegraph.document.undo.edit
InsertRemoveSubtreeEdit(Document, Node, Node, int) - Constructor for class info.bioinfweb.treegraph.document.undo.edit.InsertRemoveSubtreeEdit
InsertSiblingEdit - Class in info.bioinfweb.treegraph.document.undo.edit
  This edit is executed if a branch is selected and a new node should be inserted.
InsertSiblingEdit(Document, Node, Node) - Constructor for class info.bioinfweb.treegraph.document.undo.edit.InsertSiblingEdit
insertSubtree(Document, Node, Node) - Static method in class info.bioinfweb.treegraph.gui.actions.edit.NewNodeAction
  Inserts a new subelement as the last subelement of the given parent.
insertSubtree(Document, Node, Node, int) - Static method in class info.bioinfweb.treegraph.gui.actions.edit.NewNodeAction
  Inserts a new subelement at the given position.
InsertSubtreeEdit - Class in info.bioinfweb.treegraph.document.undo.edit
InsertSubtreeEdit(Document, Node, Node, int) - Constructor for class info.bioinfweb.treegraph.document.undo.edit.InsertSubtreeEdit
inSubtreeOf(LeafField, boolean) - Method in class info.bioinfweb.treegraph.document.undo.file.addsupportvalues.LeafField
  Returns `false` if this field (or its complement) contains any terminal the specified field does not contain and this field (or its complement) contains at least one terminal less than the specified field.
internalAdapter - Variable in class info.bioinfweb.treegraph.document.io.newick.NewickStringReader
internalFrameListener - Variable in class info.bioinfweb.treegraph.gui.treeframe.TreeInternalFrame
internalInput - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.ExportToNewickStringDialog
internalLabel - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.ExportToNewickStringDialog
internalLinesMonitor - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.IconPieChartLabelPanel
internalNodesPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.OpenDialog
InternalPieChartLinesOperator - Class in info.bioinfweb.treegraph.document.format.operate
InternalPieChartLinesOperator(boolean) - Constructor for class info.bioinfweb.treegraph.document.format.operate.InternalPieChartLinesOperator
internalsAreDecimal(Node, NodeBranchDataAdapter) - Static method in class info.bioinfweb.treegraph.document.undo.file.AddSupportValuesEdit
  Tests if all internal nodes in the subtree under `root` contain decimal values.
InternalsRadioButton - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.ExportTableDialog
IntervalDialog - Class in info.bioinfweb.treegraph.gui.dialogs.nodebranchdata
IntervalDialog(Frame) - Constructor for class info.bioinfweb.treegraph.gui.dialogs.nodebranchdata.IntervalDialog
intervalPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel
intervalPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.nodebranchdata.IntervalDialog
InvalidFormatException - Exception in info.bioinfweb.treegraph.document.undo.edit
  This exception is throw if a name table file does not have two entries seperated by the specified `String` in a line.
InvalidFormatException() - Constructor for exception info.bioinfweb.treegraph.document.undo.edit.InvalidFormatException
InvalidFormatException(String, Throwable) - Constructor for exception info.bioinfweb.treegraph.document.undo.edit.InvalidFormatException
InvalidFormatException(String) - Constructor for exception info.bioinfweb.treegraph.document.undo.edit.InvalidFormatException
InvalidFormatException(Throwable) - Constructor for exception info.bioinfweb.treegraph.document.undo.edit.InvalidFormatException
InvalidTargetException - Exception in info.bioinfweb.treegraph.document.format.operate
InvalidTargetException() - Constructor for exception info.bioinfweb.treegraph.document.format.operate.InvalidTargetException
InvalidTargetException(String, Throwable) - Constructor for exception info.bioinfweb.treegraph.document.format.operate.InvalidTargetException
InvalidTargetException(String) - Constructor for exception info.bioinfweb.treegraph.document.format.operate.InvalidTargetException
InvalidTargetException(Throwable) - Constructor for exception info.bioinfweb.treegraph.document.format.operate.InvalidTargetException
InvertSelectionAction - Class in info.bioinfweb.treegraph.gui.actions.select
InvertSelectionAction(MainFrame) - Constructor for class info.bioinfweb.treegraph.gui.actions.select.InvertSelectionAction
isAbove() - Method in class info.bioinfweb.treegraph.document.format.LabelFormats
isAbove() - Method in class info.bioinfweb.treegraph.document.Label
  Tests if this label is located in the upper label block.
isCellEditable(int, int) - Method in class info.bioinfweb.treegraph.gui.treeframe.DocumentTableModel
isCharAfterLength(char) - Static method in class info.bioinfweb.treegraph.document.io.newick.NewickStringChars
isChild(int) - Method in class info.bioinfweb.treegraph.document.undo.file.addsupportvalues.LeafField
isChildOf(Node) - Method in class info.bioinfweb.treegraph.document.Node
  Tests if the specified node is an ancestor of this node.
isConstantWidth() - Method in class info.bioinfweb.treegraph.document.format.BranchFormats
isDecimal(Node) - Method in class info.bioinfweb.treegraph.document.nodebranchdata.BranchLengthAdapter
isDecimal(Node) - Method in interface info.bioinfweb.treegraph.document.nodebranchdata.NodeBranchDataAdapter
isDecimal(Node) - Method in class info.bioinfweb.treegraph.document.nodebranchdata.TextElementDataAdapter
isDecimal(Node) - Method in class info.bioinfweb.treegraph.document.nodebranchdata.UniqueNameAdapter
isDecimal() - Method in class info.bioinfweb.treegraph.document.TextElementData
  Return whether this object contains a decimal value.
isEmpty() - Method in class info.bioinfweb.treegraph.document.clipboard.TreeClipboard
isEmpty() - Method in class info.bioinfweb.treegraph.document.HiddenDataMap
isEmpty() - Method in class info.bioinfweb.treegraph.document.Labels
  Tests if any labels are present
isEmpty() - Method in class info.bioinfweb.treegraph.document.Legends
isEmpty(Node) - Method in class info.bioinfweb.treegraph.document.nodebranchdata.BranchLengthAdapter
isEmpty(Node) - Method in interface info.bioinfweb.treegraph.document.nodebranchdata.NodeBranchDataAdapter
isEmpty(Node) - Method in class info.bioinfweb.treegraph.document.nodebranchdata.TextElementDataAdapter
isEmpty(Node) - Method in class info.bioinfweb.treegraph.document.nodebranchdata.UniqueNameAdapter
isEmpty() - Method in class info.bioinfweb.treegraph.document.TextElementData
  Return whether this object is empty.
isEmpty() - Method in class info.bioinfweb.treegraph.document.Tree
  Tests if there are tree elements present.
isEmpty() - Method in class info.bioinfweb.treegraph.gui.dialogs.io.ExportNodeDataTableModel
isEmpty() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeSelection
isEvaluating - Variable in class info.bioinfweb.treegraph.document.undo.edit.CalculateColumnEdit
isEvaluatingDecimal - Variable in class info.bioinfweb.treegraph.document.undo.edit.CalculateColumnEdit
isFirst() - Method in class info.bioinfweb.treegraph.document.Node
isFreeName(String) - Static method in class info.bioinfweb.treegraph.document.io.newick.NewickStringWriter
isFreeNameChar(char) - Static method in class info.bioinfweb.treegraph.document.io.newick.NewickStringChars
isFreeNameFirstChar(char) - Static method in class info.bioinfweb.treegraph.document.io.newick.NewickStringChars
isIncreasing() - Method in class info.bioinfweb.treegraph.document.format.ScaleBarFormats
isInScaleUnits() - Method in class info.bioinfweb.treegraph.document.format.ScaleValue
isLadderizeDown() - Method in class info.bioinfweb.treegraph.document.NodeLadderizeComparable
isLast() - Method in class info.bioinfweb.treegraph.document.Node
isLeaf() - Method in class info.bioinfweb.treegraph.document.Node
  Tests if this `Node` is at the deepest level of the tree (has no subnodes).
isNewColumn() - Method in class info.bioinfweb.treegraph.document.nodebranchdata.AbstractIDElementAdapter
isNewColumn() - Method in class info.bioinfweb.treegraph.document.nodebranchdata.BranchLengthAdapter
isNewColumn() - Method in class info.bioinfweb.treegraph.document.nodebranchdata.NewHiddenBranchDataAdapter
isNewColumn() - Method in class info.bioinfweb.treegraph.document.nodebranchdata.NewHiddenNodeDataAdapter
isNewColumn() - Method in class info.bioinfweb.treegraph.document.nodebranchdata.NewTextLabelAdapter
isNewColumn() - Method in interface info.bioinfweb.treegraph.document.nodebranchdata.NodeBranchDataAdapter
isNewColumn() - Method in class info.bioinfweb.treegraph.document.nodebranchdata.TextElementDataAdapter
isNewColumn() - Method in class info.bioinfweb.treegraph.document.nodebranchdata.UniqueNameAdapter
isOnlySubelement() - Method in class info.bioinfweb.treegraph.document.Node
  Tests if this element is the only `Node` under the parent node.
isPainter(TreePainter) - Method in class info.bioinfweb.treegraph.graphics.positionpaint.PhylogramFactory
isPainter(TreePainter) - Method in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramFactory
isPainter(TreePainter) - Method in interface info.bioinfweb.treegraph.graphics.positionpaint.SinglePositionPaintFactory
isPositioner(TreePositioner) - Method in class info.bioinfweb.treegraph.graphics.positionpaint.PhylogramFactory
isPositioner(TreePositioner) - Method in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramFactory
isPositioner(TreePositioner) - Method in interface info.bioinfweb.treegraph.graphics.positionpaint.SinglePositionPaintFactory
isSet - Variable in class info.bioinfweb.treegraph.document.format.operate.TextStyleOperator
isSignificant() - Method in class info.bioinfweb.treegraph.document.undo.DocumentEdit
isStartLeft() - Method in class info.bioinfweb.treegraph.document.format.ScaleBarFormats
isString(Node) - Method in class info.bioinfweb.treegraph.document.nodebranchdata.BranchLengthAdapter
isString(Node) - Method in interface info.bioinfweb.treegraph.document.nodebranchdata.NodeBranchDataAdapter
isString(Node) - Method in class info.bioinfweb.treegraph.document.nodebranchdata.TextElementDataAdapter
isString(Node) - Method in class info.bioinfweb.treegraph.document.nodebranchdata.UniqueNameAdapter
isString() - Method in class info.bioinfweb.treegraph.document.TextElementData
  Return whether this object contains a string value.
isSubedit - Variable in class info.bioinfweb.treegraph.document.undo.DocumentEdit
ITALIC - Static variable in interface info.bioinfweb.treegraph.document.format.TextFormats
italicCheckBox - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontFormatsPanel
italicMonitor - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontFormatsPanel
items - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LabelIconComboBoxModel
iterator() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeSelection

Overview | Package | Class | Use | Tree | Deprecated | Index | Help
PREV LETTER NEXT LETTER | FRAMES NO FRAMES

A B C D E F G H I J K L M N O P Q R S T U V W X Z