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T

table - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.ExportTableDialog

table - Variable in class info.bioinfweb.treegraph.gui.treeframe.TreeInternalFrame

tableScrollPane - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatPanel

tableScrollPane - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.ExportTableDialog

tableScrollPane - Variable in class info.bioinfweb.treegraph.gui.treeframe.TreeInternalFrame

TableSeparatorPanel - Class in info.bioinfweb.treegraph.gui.dialogs.io

Used to enter a column separator to import tables from text files.

TableSeparatorPanel() - Constructor for class info.bioinfweb.treegraph.gui.dialogs.io.TableSeparatorPanel

tabRadioButton - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.TableSeparatorPanel

tabs - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ElementFormatsDialog

TAG_ACCESSION - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_AUTHORITY - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_BRANCH - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

TAG_BRANCH_LENGTH - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_CLADE - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_CODE - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_COLOR_BLUE - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_COLOR_GREEN - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_COLOR_RED - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_COMMON_NAME - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_CONFIDENCE - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_DATE - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_DESCRIPTION - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_DISTRIBUTION - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_DOC_MARGIN - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

TAG_GLOBAL_FORMATS - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

TAG_HIDDEN_DATA - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

TAG_ICON_LABEL - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

TAG_LABEL_MARGIN - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

TAG_LEAF_MARGIN - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

TAG_LEGEND - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

TAG_LEGEND_MARGIN - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

TAG_LINE_COLOR - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_LINE_WIDTH - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_LOCATION - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_MAX - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_MIN - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_NAME - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_NODE - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

TAG_PHYLOGENY - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_PIE_CHART_ID - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

TAG_PIE_CHART_IDS - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

TAG_PIE_CHART_LABEL - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

TAG_RANK - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_ROOT - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_ROOT - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

TAG_SCALE_BAR - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

TAG_SCIENTIFIC_NAME - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_SEQUENCE - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_SYMBOL - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_SYNONYM - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_TAXONOMY - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

TAG_TEXT_LABEL - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

TAG_TREE - Static variable in interface info.bioinfweb.treegraph.document.io.xtg.XTGConstants

TAG_VALUE - Static variable in interface info.bioinfweb.treegraph.document.io.phyloxml.PhyloXMLConstants

targetAdapters - Variable in class info.bioinfweb.treegraph.document.undo.format.ColorsByNodeBranchDataEdit

targetAdapters - Variable in class info.bioinfweb.treegraph.document.undo.format.DistanceValuesBackup

targetAdapters - Variable in class info.bioinfweb.treegraph.document.undo.format.DistanceValuesByNodeBranchDataEdit

targetAdapters - Variable in class info.bioinfweb.treegraph.document.undo.format.ScaleDistanceValuesEdit

targetDataButtonGroup - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

targetLeafsAdapter - Variable in class info.bioinfweb.treegraph.document.undo.file.AddSupportValuesEdit

The column that contains the terminal identifiers in the target document (usually nodes names)

targetList - Variable in class info.bioinfweb.treegraph.gui.dialogs.specialformats.SpecialFormatsDialog

targetListModel - Variable in class info.bioinfweb.treegraph.gui.dialogs.specialformats.SpecialFormatsDialog

targetNode - Variable in class info.bioinfweb.treegraph.document.Branch

targetPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.specialformats.SpecialFormatsDialog

targetScrollPane - Variable in class info.bioinfweb.treegraph.gui.dialogs.specialformats.SpecialFormatsDialog

targetTypePanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

TERMINAL_SYMBOL - Static variable in class info.bioinfweb.treegraph.document.io.newick.NewickStringChars

terminalDataInput - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

terminalsLabel - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

terminalsPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

terminateNewick(String) - Method in class info.bioinfweb.treegraph.document.io.newick.NewickReader

text - Variable in class info.bioinfweb.treegraph.document.io.newick.NewickToken

text - Variable in class info.bioinfweb.treegraph.document.TextElementData

TEXT - Static variable in class info.bioinfweb.treegraph.graphics.positionpaint.labelicons.UnknownIcon

TEXT - Static variable in class info.bioinfweb.treegraph.gui.actions.edit.ReplaceInNodeDataAction

TEXT_CENTIMETER - Static variable in class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRulerUnitField

TEXT_INCH - Static variable in class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRulerUnitField

textColor - Variable in class info.bioinfweb.treegraph.document.format.ConcreteTextFormats

TextColorOperator - Class in info.bioinfweb.treegraph.document.format.operate

TextColorOperator(Color) - Constructor for class info.bioinfweb.treegraph.document.format.operate.TextColorOperator

TextElement - Interface in info.bioinfweb.treegraph.document

Implemented by all document elements which contains textual or numeric values.

textElement - Variable in class info.bioinfweb.treegraph.gui.dialogs.editelement.AbstractTextElementDialog

TextElementData - Class in info.bioinfweb.treegraph.document

This class is used to store data of tree elements which can either be a string or a decimal value.

TextElementData() - Constructor for class info.bioinfweb.treegraph.document.TextElementData

TextElementData(String) - Constructor for class info.bioinfweb.treegraph.document.TextElementData

TextElementData(double) - Constructor for class info.bioinfweb.treegraph.document.TextElementData

TextElementDataAdapter - Class in info.bioinfweb.treegraph.document.nodebranchdata

This abstract class implements basic funktionalities for adapters that deal with data stored in a TextElementData-object.

TextElementDataAdapter() - Constructor for class info.bioinfweb.treegraph.document.nodebranchdata.TextElementDataAdapter

TextElementEdit - Class in info.bioinfweb.treegraph.document.undo.edit

TextElementEdit(Document, TextElement, TextElementData) - Constructor for class info.bioinfweb.treegraph.document.undo.edit.TextElementEdit

textField - Variable in class info.bioinfweb.treegraph.gui.dialogs.nodebranchdatainput.NewNodeBranchDataInput

TextFormats - Interface in info.bioinfweb.treegraph.document.format

textFormats - Variable in class info.bioinfweb.treegraph.document.format.TextLabelFormats

textHeight - Variable in class info.bioinfweb.treegraph.document.format.ConcreteTextFormats

textHeight - Variable in class info.bioinfweb.treegraph.document.format.operate.TextHeightOperator

TextHeightOperator - Class in info.bioinfweb.treegraph.document.format.operate

TextHeightOperator(DistanceValue) - Constructor for class info.bioinfweb.treegraph.document.format.operate.TextHeightOperator

TextLabel - Class in info.bioinfweb.treegraph.document

TextLabel(Labels) - Constructor for class info.bioinfweb.treegraph.document.TextLabel

textLabel - Variable in class info.bioinfweb.treegraph.gui.dialogs.editelement.AbstractTextElementDialog

TextLabelAdapter - Class in info.bioinfweb.treegraph.document.nodebranchdata

TextLabelAdapter(String, DecimalFormat) - Constructor for class info.bioinfweb.treegraph.document.nodebranchdata.TextLabelAdapter

TextLabelFormats - Class in info.bioinfweb.treegraph.document.format

TextLabelFormats(Label, boolean, int, int) - Constructor for class info.bioinfweb.treegraph.document.format.TextLabelFormats

TextLabelFormats(Label) - Constructor for class info.bioinfweb.treegraph.document.format.TextLabelFormats

TextOrientation - Enum in info.bioinfweb.treegraph.document.format

TextOrientation() - Constructor for enum info.bioinfweb.treegraph.document.format.TextOrientation

TextOrientationOperator - Class in info.bioinfweb.treegraph.document.format.operate

TextOrientationOperator(TextOrientation) - Constructor for class info.bioinfweb.treegraph.document.format.operate.TextOrientationOperator

textPos - Variable in class info.bioinfweb.treegraph.document.io.newick.NewickToken

textPos - Variable in class info.bioinfweb.treegraph.document.position.LegendPositionData

TextStreamReader - Class in info.bioinfweb.treegraph.document.io

TextStreamReader() - Constructor for class info.bioinfweb.treegraph.document.io.TextStreamReader

textStyle - Variable in class info.bioinfweb.treegraph.document.format.ConcreteTextFormats

TextStyleOperator - Class in info.bioinfweb.treegraph.document.format.operate

TextStyleOperator(boolean, int) - Constructor for class info.bioinfweb.treegraph.document.format.operate.TextStyleOperator

TG_URL - Static variable in class info.bioinfweb.treegraph.Main

TGFFactory - Class in info.bioinfweb.treegraph.document.io.tgf

TGFFactory() - Constructor for class info.bioinfweb.treegraph.document.io.tgf.TGFFactory

TGFFilter - Class in info.bioinfweb.treegraph.document.io.tgf

TGFFilter() - Constructor for class info.bioinfweb.treegraph.document.io.tgf.TGFFilter

TGFReader - Class in info.bioinfweb.treegraph.document.io.tgf

TGFReader() - Constructor for class info.bioinfweb.treegraph.document.io.tgf.TGFReader

TIFFFactory - Class in info.bioinfweb.treegraph.graphics.export.tiff

TIFFFactory() - Constructor for class info.bioinfweb.treegraph.graphics.export.tiff.TIFFFactory

TIFFFilter - Class in info.bioinfweb.treegraph.graphics.export.tiff

TIFFFilter() - Constructor for class info.bioinfweb.treegraph.graphics.export.tiff.TIFFFilter

TIFFPrefPanel - Class in info.bioinfweb.treegraph.gui.dialogs.io.exporttographic

TIFFPrefPanel() - Constructor for class info.bioinfweb.treegraph.gui.dialogs.io.exporttographic.TIFFPrefPanel

TIFFWriter - Class in info.bioinfweb.treegraph.graphics.export.tiff

TIFFWriter() - Constructor for class info.bioinfweb.treegraph.graphics.export.tiff.TIFFWriter

TileHorizontalAction - Class in info.bioinfweb.treegraph.gui.actions.window

TileHorizontalAction() - Constructor for class info.bioinfweb.treegraph.gui.actions.window.TileHorizontalAction

tileInternalFramesHorizontal() - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

tileInternalFramesVertical() - Method in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

TileVerticalAction - Class in info.bioinfweb.treegraph.gui.actions.window

TileVerticalAction() - Constructor for class info.bioinfweb.treegraph.gui.actions.window.TileVerticalAction

TitedCrossIcon - Class in info.bioinfweb.treegraph.graphics.positionpaint.labelicons

TitedCrossIcon() - Constructor for class info.bioinfweb.treegraph.graphics.positionpaint.labelicons.TitedCrossIcon

TitedHexagonIcon - Class in info.bioinfweb.treegraph.graphics.positionpaint.labelicons

TitedHexagonIcon() - Constructor for class info.bioinfweb.treegraph.graphics.positionpaint.labelicons.TitedHexagonIcon

title() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.BranchPanel

title() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatPanel

title() - Method in interface info.bioinfweb.treegraph.gui.dialogs.elementformats.ElementFormatTab

title() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontColorPanel

title() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.FontFormatsPanel

title() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.IconPieChartLabelPanel

title() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LabelPanel

title() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LegendPanel

title() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.LinePanel

title() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.NodeMarginPanel

title() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

titleLabel - Variable in class info.bioinfweb.treegraph.gui.dialogs.MarginInput

toArray() - Method in class info.bioinfweb.treegraph.document.format.operate.OperatorMap

toArray(T[]) - Method in class info.bioinfweb.treegraph.document.Legends

toArray(T[]) - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeSelection

toIconLabelArray() - Method in class info.bioinfweb.treegraph.document.Labels

tokens - Variable in class info.bioinfweb.treegraph.document.io.newick.NewickStringReader

tokens - Variable in class info.bioinfweb.treegraph.document.io.nexus.NexusCommand

TokenType - Enum in info.bioinfweb.treegraph.document.io.newick

TokenType() - Constructor for enum info.bioinfweb.treegraph.document.io.newick.TokenType

toLabelArray(boolean, boolean, boolean) - Method in class info.bioinfweb.treegraph.document.Labels

toLabelArray() - Method in class info.bioinfweb.treegraph.document.Labels

toolBarPanel - Variable in class info.bioinfweb.treegraph.gui.mainframe.MainFrame

ToolBarPanel - Class in info.bioinfweb.treegraph.gui.mainframe

Component used to display the wrapable tool bar of TreeGraph 2.

ToolBarPanel(MainFrame) - Constructor for class info.bioinfweb.treegraph.gui.mainframe.ToolBarPanel

ToolBarPanel.ToolBarOrientation - Enum in info.bioinfweb.treegraph.gui.mainframe

ToolBarPanel.ToolBarOrientation() - Constructor for enum info.bioinfweb.treegraph.gui.mainframe.ToolBarPanel.ToolBarOrientation

top - Variable in class info.bioinfweb.treegraph.document.format.Margin

top - Variable in class info.bioinfweb.treegraph.document.position.PositionData

top - Variable in class info.bioinfweb.treegraph.gui.dialogs.MarginInput

topic - Variable in class info.bioinfweb.treegraph.gui.actions.help.HelpTopicAction

toPieChartLabelArray() - Method in class info.bioinfweb.treegraph.document.Labels

toRect(float) - Method in class info.bioinfweb.treegraph.document.position.PositionData

toString() - Method in class info.bioinfweb.treegraph.document.AbstractTextElement

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.color.BranchLineColorAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.color.LabelLineColorAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.color.LabelTextColorAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.color.NodeLineColorAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.color.NodeTextColorAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.BranchLineWidthAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.BranchMinLengthAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.BranchSpaceAboveAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.BranchSpaceBelowAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.CornerRadiusAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.IconHeightAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.IconWidthAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.LabelMarginBottomAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.LabelMarginLeftAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.LabelMarginRightAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.LabelMarginTopAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.LabelTextHeightAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.LeafMarginBottomAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.LeafMarginLeftAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.LeafMarginRightAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.LeafMarginTopAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.LegendLineWidthAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.LegendMarginBottomAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.LegendMarginLeftAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.LegendMarginRightAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.LegendMarginTopAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.LegendSpacingAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.LegendTextHeightAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.NodeLineWidthAdapter

toString() - Method in class info.bioinfweb.treegraph.document.format.adapters.distance.NodeTextHeightAdapter

toString() - Method in class info.bioinfweb.treegraph.document.HiddenDataMap

toString() - Method in class info.bioinfweb.treegraph.document.io.log.LoggerMessage

toString() - Method in enum info.bioinfweb.treegraph.document.io.newick.TokenType

toString() - Method in class info.bioinfweb.treegraph.document.nodebranchdata.BranchLengthAdapter

toString() - Method in class info.bioinfweb.treegraph.document.nodebranchdata.HiddenBranchDataAdapter

toString() - Method in class info.bioinfweb.treegraph.document.nodebranchdata.HiddenNodeDataAdapter

toString() - Method in class info.bioinfweb.treegraph.document.nodebranchdata.NewHiddenBranchDataAdapter

toString() - Method in class info.bioinfweb.treegraph.document.nodebranchdata.NewHiddenNodeDataAdapter

toString() - Method in class info.bioinfweb.treegraph.document.nodebranchdata.NewTextLabelAdapter

toString() - Method in interface info.bioinfweb.treegraph.document.nodebranchdata.NodeBranchDataAdapter

A description of the adapter that is readable by the user should be returned here.

toString() - Method in class info.bioinfweb.treegraph.document.nodebranchdata.NodeNameAdapter

toString() - Method in class info.bioinfweb.treegraph.document.nodebranchdata.TextLabelAdapter

toString() - Method in class info.bioinfweb.treegraph.document.nodebranchdata.UniqueNameAdapter

toString() - Method in class info.bioinfweb.treegraph.document.position.PositionData

toString() - Method in class info.bioinfweb.treegraph.document.TextElementData

Returns either the stored string, the decimal value as a sting or null if the object is empty.

toString() - Method in class info.bioinfweb.treegraph.document.undo.file.addsupportvalues.LeafField

toString() - Method in class info.bioinfweb.treegraph.gui.dialogs.elementformats.piecolor.PieColorListEntry

toString(String) - Method in class info.bioinfweb.treegraph.gui.dialogs.specialformats.AbstractLabelAdapter

toTextLabelArray() - Method in class info.bioinfweb.treegraph.document.Labels

transcoderClass - Variable in class info.bioinfweb.treegraph.graphics.export.SVGTranscodeWriter

TRANSL_TABLE_PATTERN - Static variable in class info.bioinfweb.treegraph.document.io.nexus.NexusParser

TRANSL_TABLE_SEPARATOR_PATTERN - Static variable in class info.bioinfweb.treegraph.document.io.nexus.NexusParser

translateInternalNodesCheckBox - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.OpenDialog

translateInternals - Variable in class info.bioinfweb.treegraph.document.io.newick.NewickStringReader

translateInternalsCheckBox - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog

translTable - Variable in class info.bioinfweb.treegraph.document.io.newick.NewickStringReader

translTable - Variable in class info.bioinfweb.treegraph.document.io.nexus.NexusDocument

TranslTable - Class in info.bioinfweb.treegraph.document.io.nexus

Stores the content of a taxon table in a nexus document.

TranslTable() - Constructor for class info.bioinfweb.treegraph.document.io.nexus.TranslTable

TransparentBgPrefPanel - Class in info.bioinfweb.treegraph.gui.dialogs.io.exporttographic

TransparentBgPrefPanel() - Constructor for class info.bioinfweb.treegraph.gui.dialogs.io.exporttographic.TransparentBgPrefPanel

This is the default constructor

transparentCheckBox - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.exporttographic.TransparentBgPrefPanel

tree - Variable in class info.bioinfweb.treegraph.document.Document

tree - Variable in class info.bioinfweb.treegraph.document.Legends

Tree - Class in info.bioinfweb.treegraph.document

Instances of this class provide an environment for the recursive data-structure of tree-elements without their formats.

Tree() - Constructor for class info.bioinfweb.treegraph.document.Tree

TREE_COMMAND - Static variable in class info.bioinfweb.treegraph.document.io.nexus.NexusParser

TREE_COMMAND_PATTERN - Static variable in class info.bioinfweb.treegraph.document.io.nexus.NexusParser

TREE_NAME_SEPERATOR - Static variable in class info.bioinfweb.treegraph.document.io.nexus.NexusParser

TREE_WIDTH_RATIO - Static variable in class info.bioinfweb.treegraph.gui.treeframe.TreeInternalFrame

TreeClipboard - Class in info.bioinfweb.treegraph.document.clipboard

This class is a clipboard for tree elements.

TreeClipboard() - Constructor for class info.bioinfweb.treegraph.document.clipboard.TreeClipboard

TreeClipboardException - Exception in info.bioinfweb.treegraph.document.clipboard

TreeClipboardException() - Constructor for exception info.bioinfweb.treegraph.document.clipboard.TreeClipboardException

TreeClipboardException(String, Throwable) - Constructor for exception info.bioinfweb.treegraph.document.clipboard.TreeClipboardException

TreeClipboardException(String) - Constructor for exception info.bioinfweb.treegraph.document.clipboard.TreeClipboardException

TreeClipboardException(Throwable) - Constructor for exception info.bioinfweb.treegraph.document.clipboard.TreeClipboardException

treeComboBox - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.TreeSelectionDialog

treeDistance - Variable in class info.bioinfweb.treegraph.document.format.ScaleBarFormats

treeDistanceInput - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

TreeEditlInputListener - Class in info.bioinfweb.treegraph.gui.treeframe

This listener implements the reactions to user inputs for editing the tree in a tree window.

TreeEditlInputListener() - Constructor for class info.bioinfweb.treegraph.gui.treeframe.TreeEditlInputListener

TreeEditlInputListener(TreeViewPanel) - Constructor for class info.bioinfweb.treegraph.gui.treeframe.TreeEditlInputListener

TreeElement - Interface in info.bioinfweb.treegraph.document

Implemented by document elements which are part of the tree (unlike e.g. legends or the scale bar).

treeFrame - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.exporttographic.ExportToGraphicDialog

TreeGraphAction - Class in info.bioinfweb.treegraph.gui.actions

TreeGraphAction() - Constructor for class info.bioinfweb.treegraph.gui.actions.TreeGraphAction

TreeInternalFrame - Class in info.bioinfweb.treegraph.gui.treeframe

The internal frame displaying a document.

TreeInternalFrame(Document) - Constructor for class info.bioinfweb.treegraph.gui.treeframe.TreeInternalFrame

This is the xxx default constructor

TreePainter - Interface in info.bioinfweb.treegraph.graphics.positionpaint

TreePath - Class in info.bioinfweb.treegraph.document

This class stores the path to an node from the root of the tree or a specified ancestor.

TreePath(Node) - Constructor for class info.bioinfweb.treegraph.document.TreePath

Creates a path from the specified leaf to the root of the tree.

TreePath(Node, Node) - Constructor for class info.bioinfweb.treegraph.document.TreePath

Creates a path from the specified leaf to the specified ancestor (not including the ancestor itself).

TreePositioner - Interface in info.bioinfweb.treegraph.graphics.positionpaint

trees - Variable in class info.bioinfweb.treegraph.document.io.nexus.NexusDocument

trees - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.TreeSelectionDialog

TREES_PATTERN - Static variable in class info.bioinfweb.treegraph.document.io.nexus.NexusParser

treeScrollPane - Variable in class info.bioinfweb.treegraph.gui.treeframe.TreeInternalFrame

TreeSelection - Class in info.bioinfweb.treegraph.gui.treeframe

This class manages the selection of multiple elements in an tree view panel.

TreeSelection(TreeViewPanel) - Constructor for class info.bioinfweb.treegraph.gui.treeframe.TreeSelection

TreeSelectionDialog - Class in info.bioinfweb.treegraph.gui.dialogs.io

TreeSelectionDialog(Frame) - Constructor for class info.bioinfweb.treegraph.gui.dialogs.io.TreeSelectionDialog

TreeSelector - Interface in info.bioinfweb.treegraph.document.io

Classes implementing this interface allow a reader class to select a tree to be imported if several trees are contained in a file.

TreeSerializer - Class in info.bioinfweb.treegraph.document

Utility class that is able to serialize tree elements in several ways.

TreeSerializer() - Constructor for class info.bioinfweb.treegraph.document.TreeSerializer

treesToArray() - Method in class info.bioinfweb.treegraph.document.io.nexus.NexusDocument

treeViewInputListener - Variable in class info.bioinfweb.treegraph.gui.treeframe.TreeInternalFrame

treeViewListeners - Variable in class info.bioinfweb.treegraph.gui.treeframe.TreeViewPanel

treeViewPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.TreeSelectionDialog

treeViewPanel - Variable in class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRuler

treeViewPanel - Variable in class info.bioinfweb.treegraph.gui.treeframe.TreeInternalFrame

TreeViewPanel - Class in info.bioinfweb.treegraph.gui.treeframe

Shows the tree saved in the associated document in a swing GUI.

TreeViewPanel(Document) - Constructor for class info.bioinfweb.treegraph.gui.treeframe.TreeViewPanel

Creates a new swing-panel which shows the tree contained in document.

TreeViewPanelListener - Interface in info.bioinfweb.treegraph.gui.treeframe

Classes that have to be informed about changes happening in a TreeViewPanel should implement this interface.

TreeViewRuler - Class in info.bioinfweb.treegraph.gui.treeframe.ruler

Component to display a ruler next to a tree.

TreeViewRuler(RulerOrientation, TreeViewPanel) - Constructor for class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRuler

TreeViewRulerConstants - Interface in info.bioinfweb.treegraph.gui.treeframe.ruler

Constants used with a TreeViewRuler.

TreeViewRulerUnitField - Class in info.bioinfweb.treegraph.gui.treeframe.ruler

Component used to display and change the unit used by a TreeViewRuler.

TreeViewRulerUnitField(TreeViewRuler, TreeViewRuler) - Constructor for class info.bioinfweb.treegraph.gui.treeframe.ruler.TreeViewRulerUnitField

treeWidthRadioButton - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.ScaleBarPanel

TriangleIcon - Class in info.bioinfweb.treegraph.graphics.positionpaint.labelicons

TriangleIcon() - Constructor for class info.bioinfweb.treegraph.graphics.positionpaint.labelicons.TriangleIcon

twoSectorsNotNull(double[]) - Method in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramPainter

Tests of at least two of the specified angles are valid floating point values greater than zero.

type - Variable in class info.bioinfweb.treegraph.document.io.log.LoggerMessage

type - Variable in class info.bioinfweb.treegraph.document.io.newick.NewickToken

type - Variable in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramPainter

type - Variable in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramPositioner

type - Variable in class info.bioinfweb.treegraph.gui.actions.view.ChangePainterIDAction

typeLabel - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.AssignImportColumnsDialog