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## N

name - Variable in class info.bioinfweb.treegraph.document.io.nexus.NexusCommand
name() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.PhylogramFactory
name() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramFactory
name() - Method in interface info.bioinfweb.treegraph.graphics.positionpaint.SinglePositionPaintFactory
  Returns the name of this view mode.
NAME_BLOCK_BEGIN - Static variable in class info.bioinfweb.treegraph.document.io.nexus.NexusParser
NAME_BLOCK_END - Static variable in class info.bioinfweb.treegraph.document.io.nexus.NexusParser
NAME_DELIMITER - Static variable in class info.bioinfweb.treegraph.document.io.newick.NewickStringChars
NAME_DELIMITER - Static variable in class info.bioinfweb.treegraph.document.io.nexus.NexusParser
NAME_NEXUS - Static variable in class info.bioinfweb.treegraph.document.io.nexus.NexusParser
NAME_SEPARATOR_PATTERN - Static variable in class info.bioinfweb.treegraph.document.io.nexus.NexusParser
NAME_TRANSL_TABLE - Static variable in class info.bioinfweb.treegraph.document.io.nexus.NexusParser
NAME_TREES - Static variable in class info.bioinfweb.treegraph.document.io.nexus.NexusParser
nameList - Variable in class info.bioinfweb.treegraph.document.io.nexus.TranslTable
nameManager - Variable in class info.bioinfweb.treegraph.Main
names - Variable in class info.bioinfweb.treegraph.document.io.nexus.NexusDocument
names() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.PositionPaintFactory
namesToArray() - Method in class info.bioinfweb.treegraph.document.io.nexus.NexusDocument
nameTableDialog - Variable in class info.bioinfweb.treegraph.gui.dialogs.datatable.DataTableDialog
needsBrancheLengths(PositionPaintType) - Method in class info.bioinfweb.treegraph.graphics.positionpaint.PositionPaintFactory
needsBranchLengths() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.PhylogramFactory
needsBranchLengths() - Method in class info.bioinfweb.treegraph.graphics.positionpaint.RectangularCladogramFactory
needsBranchLengths() - Method in interface info.bioinfweb.treegraph.graphics.positionpaint.SinglePositionPaintFactory
negativeExampleLabel - Variable in class info.bioinfweb.treegraph.gui.dialogs.elementformats.DecimalFormatPanel
newAnchors - Variable in class info.bioinfweb.treegraph.document.undo.format.ReanchorLegendEdit
newData - Variable in class info.bioinfweb.treegraph.document.undo.edit.TextElementEdit
NewDocumentAction - Class in info.bioinfweb.treegraph.gui.actions.file
NewDocumentAction(MainFrame) - Constructor for class info.bioinfweb.treegraph.gui.actions.file.NewDocumentAction
newFormats - Variable in class info.bioinfweb.treegraph.document.undo.format.GlobalFormatsEdit
NewHiddenBranchDataAdapter - Class in info.bioinfweb.treegraph.document.nodedata
  Creates a new hidden branch data column.
NewHiddenBranchDataAdapter() - Constructor for class info.bioinfweb.treegraph.document.nodedata.NewHiddenBranchDataAdapter
NewHiddenNodeDataAdapter - Class in info.bioinfweb.treegraph.document.nodedata
  Creates a new hidden node data column.
NewHiddenNodeDataAdapter() - Constructor for class info.bioinfweb.treegraph.document.nodedata.NewHiddenNodeDataAdapter
NewickException - Exception in info.bioinfweb.treegraph.document.io.newick
NewickException(int) - Constructor for exception info.bioinfweb.treegraph.document.io.newick.NewickException
NewickException(int, String) - Constructor for exception info.bioinfweb.treegraph.document.io.newick.NewickException
NewickException(int, TokenType, TokenType) - Constructor for exception info.bioinfweb.treegraph.document.io.newick.NewickException
NewickException(NewickToken) - Constructor for exception info.bioinfweb.treegraph.document.io.newick.NewickException
NewickFactory - Class in info.bioinfweb.treegraph.document.io.newick
NewickFactory() - Constructor for class info.bioinfweb.treegraph.document.io.newick.NewickFactory
NewickFilter - Class in info.bioinfweb.treegraph.document.io.newick
NewickFilter() - Constructor for class info.bioinfweb.treegraph.document.io.newick.NewickFilter
NewickReader - Class in info.bioinfweb.treegraph.document.io.newick
NewickReader() - Constructor for class info.bioinfweb.treegraph.document.io.newick.NewickReader
  Contructs an instance of `NewickReader` with a
NewickScanner - Class in info.bioinfweb.treegraph.document.io.newick
NewickScanner() - Constructor for class info.bioinfweb.treegraph.document.io.newick.NewickScanner
NewickStringChars - Class in info.bioinfweb.treegraph.document.io.newick
NewickStringChars() - Constructor for class info.bioinfweb.treegraph.document.io.newick.NewickStringChars
NewickStringReader - Class in info.bioinfweb.treegraph.document.io.newick
  This class converts a tree in the newick format to a `Document`.
NewickStringReader() - Constructor for class info.bioinfweb.treegraph.document.io.newick.NewickStringReader
NewickStringWriter - Class in info.bioinfweb.treegraph.document.io.newick
NewickStringWriter() - Constructor for class info.bioinfweb.treegraph.document.io.newick.NewickStringWriter
NewickToken - Class in info.bioinfweb.treegraph.document.io.newick
NewickToken(TokenType, int) - Constructor for class info.bioinfweb.treegraph.document.io.newick.NewickToken
NewickToken(int, String, boolean) - Constructor for class info.bioinfweb.treegraph.document.io.newick.NewickToken
NewickToken(int, double) - Constructor for class info.bioinfweb.treegraph.document.io.newick.NewickToken
NewickWriter - Class in info.bioinfweb.treegraph.document.io.newick
  This class writes a `Document` in a nexus file (contains only the newick string).
NewickWriter() - Constructor for class info.bioinfweb.treegraph.document.io.newick.NewickWriter
newID(Vector<String>) - Static method in class info.bioinfweb.treegraph.document.IDManager
newID - Variable in class info.bioinfweb.treegraph.document.undo.edit.ChangeLabelIDEdit
newIDs - Variable in class info.bioinfweb.treegraph.document.undo.edit.AssignLabelIDsEdit
newIDSelected(boolean) - Method in interface info.bioinfweb.treegraph.gui.dialogs.nodedatainput.NodeDataInputListener
  This Method is called if the user selects "label with new ID" or "branch data with new ID" from the combo box of `NewNodeDataInput`.
NewLabelAdapter - Class in info.bioinfweb.treegraph.document.nodedata
  Creates a new group of labels.
NewLabelAdapter() - Constructor for class info.bioinfweb.treegraph.document.nodedata.NewLabelAdapter
NewLegendAction - Class in info.bioinfweb.treegraph.gui.actions.edit
NewLegendAction(MainFrame) - Constructor for class info.bioinfweb.treegraph.gui.actions.edit.NewLegendAction
newLength - Variable in class info.bioinfweb.treegraph.document.undo.edit.BranchLengthEdit
newMin - Variable in class info.bioinfweb.treegraph.gui.dialogs.datatable.math.RescaleCalculator
newNames - Variable in class info.bioinfweb.treegraph.document.undo.edit.ApplyNameTableEdit
newNameTextField - Variable in class info.bioinfweb.treegraph.gui.dialogs.RenameIDDialog
NewNodeAction - Class in info.bioinfweb.treegraph.gui.actions.edit
NewNodeAction(MainFrame) - Constructor for class info.bioinfweb.treegraph.gui.actions.edit.NewNodeAction
NewNodeDataAdapter - Interface in info.bioinfweb.treegraph.document.nodedata
  This interface should be implemented by all node data adapters that create a new node data column (e.g. a new group of labels).
NewNodeDataInput - Class in info.bioinfweb.treegraph.gui.dialogs.nodedatainput
NewNodeDataInput(JPanel, int, int, boolean) - Constructor for class info.bioinfweb.treegraph.gui.dialogs.nodedatainput.NewNodeDataInput
newParent - Variable in class info.bioinfweb.treegraph.document.undo.edit.InsertSiblingEdit
newRoot - Variable in class info.bioinfweb.treegraph.document.undo.ComplexDocumentEdit
newRoot - Variable in class info.bioinfweb.treegraph.document.undo.edit.EditNodeBranchDataEdit
newText - Variable in class info.bioinfweb.treegraph.document.undo.edit.ReplaceInNodeDataEdit
NewTextLabelAction - Class in info.bioinfweb.treegraph.gui.actions.edit
NewTextLabelAction(MainFrame) - Constructor for class info.bioinfweb.treegraph.gui.actions.edit.NewTextLabelAction
NewTextLabelDialog - Class in info.bioinfweb.treegraph.gui.dialogs.editelement
NewTextLabelDialog(Frame) - Constructor for class info.bioinfweb.treegraph.gui.dialogs.editelement.NewTextLabelDialog
newUniqueName() - Method in class info.bioinfweb.treegraph.document.Tree
  Generates a random unique name for a node which is currently not present in this tree.
NextDocumentAction - Class in info.bioinfweb.treegraph.gui.actions.window
NextDocumentAction(MainFrame) - Constructor for class info.bioinfweb.treegraph.gui.actions.window.NextDocumentAction
NexusCommand - Class in info.bioinfweb.treegraph.document.io.nexus
NexusCommand(String) - Constructor for class info.bioinfweb.treegraph.document.io.nexus.NexusCommand
NexusCommand(String, String) - Constructor for class info.bioinfweb.treegraph.document.io.nexus.NexusCommand
NexusDocument - Class in info.bioinfweb.treegraph.document.io.nexus
NexusDocument() - Constructor for class info.bioinfweb.treegraph.document.io.nexus.NexusDocument
NexusError - Enum in info.bioinfweb.treegraph.document.io.nexus
NexusError() - Constructor for enum info.bioinfweb.treegraph.document.io.nexus.NexusError
NexusException - Exception in info.bioinfweb.treegraph.document.io.nexus
NexusException(NexusError) - Constructor for exception info.bioinfweb.treegraph.document.io.nexus.NexusException
NexusFactory - Class in info.bioinfweb.treegraph.document.io.nexus
NexusFactory() - Constructor for class info.bioinfweb.treegraph.document.io.nexus.NexusFactory
NexusFilter - Class in info.bioinfweb.treegraph.document.io.nexus
NexusFilter() - Constructor for class info.bioinfweb.treegraph.document.io.nexus.NexusFilter
nexusFilter - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog
nexusFilter - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.ExportToNewickStringDialog
nexusFilter - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.OpenDialog
NexusParser - Class in info.bioinfweb.treegraph.document.io.nexus
NexusParser() - Constructor for class info.bioinfweb.treegraph.document.io.nexus.NexusParser
NexusReader - Class in info.bioinfweb.treegraph.document.io.nexus
  This class reads a tree loads a tree out of a nexus file.
NexusReader() - Constructor for class info.bioinfweb.treegraph.document.io.nexus.NexusReader
  Contructs an instance of `NexusReader` with a
NexusWriter - Class in info.bioinfweb.treegraph.document.io.nexus
NexusWriter() - Constructor for class info.bioinfweb.treegraph.document.io.nexus.NexusWriter
Node - Class in info.bioinfweb.treegraph.document
  This class represents a node of a tree in the TreeGraph data structure.
Node() - Constructor for class info.bioinfweb.treegraph.document.Node
node - Variable in class info.bioinfweb.treegraph.document.NodeLadderizeComparable
node - Variable in class info.bioinfweb.treegraph.document.undo.edit.CollapseNodeEdit
node - Variable in class info.bioinfweb.treegraph.document.undo.edit.SeparateBranchEdit
nodeCount() - Method in class info.bioinfweb.treegraph.gui.treeframe.TreeSelection
NodeDataActionNotSupportedException - Exception in info.bioinfweb.treegraph.document.nodedata
  This exception is thrown by node data adapters if an unsupported operation is perfomed (e.g.
NodeDataActionNotSupportedException() - Constructor for exception info.bioinfweb.treegraph.document.nodedata.NodeDataActionNotSupportedException
NodeDataActionNotSupportedException(String, Throwable) - Constructor for exception info.bioinfweb.treegraph.document.nodedata.NodeDataActionNotSupportedException
NodeDataActionNotSupportedException(String) - Constructor for exception info.bioinfweb.treegraph.document.nodedata.NodeDataActionNotSupportedException
NodeDataActionNotSupportedException(Throwable) - Constructor for exception info.bioinfweb.treegraph.document.nodedata.NodeDataActionNotSupportedException
NodeDataAdapter - Interface in info.bioinfweb.treegraph.document.nodedata
nodeDataButtonsPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog
NodeDataCalculator - Interface in info.bioinfweb.treegraph.gui.dialogs.datatable.math
  This interface should be implemented by all classes that are able to rescale or recalculate decimal node data in any way.
nodeDataComboBox - Variable in class info.bioinfweb.treegraph.gui.dialogs.BranchWidthFromNodeDataDialog
NodeDataComboBoxModel - Class in info.bioinfweb.treegraph.gui.dialogs.nodedatainput
NodeDataComboBoxModel() - Constructor for class info.bioinfweb.treegraph.gui.dialogs.nodedatainput.NodeDataComboBoxModel
NodeDataFormatEdit - Class in info.bioinfweb.treegraph.document.undo.format
NodeDataFormatEdit(Document) - Constructor for class info.bioinfweb.treegraph.document.undo.format.NodeDataFormatEdit
nodeDataInput - Variable in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog
nodeDataInput - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.OpenDialog
NodeDataInput - Class in info.bioinfweb.treegraph.gui.dialogs.nodedatainput
NodeDataInput(JPanel, int, int) - Constructor for class info.bioinfweb.treegraph.gui.dialogs.nodedatainput.NodeDataInput
NodeDataInputListener - Interface in info.bioinfweb.treegraph.gui.dialogs.nodedatainput
nodeDataLabel - Variable in class info.bioinfweb.treegraph.gui.dialogs.ApplyNameTableDialog
nodeDataLabel - Variable in class info.bioinfweb.treegraph.gui.dialogs.BranchWidthFromNodeDataDialog
nodeDataLabel - Variable in class info.bioinfweb.treegraph.gui.dialogs.ReplaceInNodeDataDialog
nodeDataPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.ApplyNameTableDialog
nodeDataPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.datatable.ExportNodeDataDialog
nodeDataPanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.ExportToNewickStringDialog
nodeDataRadioButton - Variable in class info.bioinfweb.treegraph.gui.dialogs.io.AddSupportValuesDialog
NodeDataTableModel - Class in info.bioinfweb.treegraph.gui.dialogs.datatable
  This table model allows to display all branch and node data in a table.
NodeDataTableModel() - Constructor for class info.bioinfweb.treegraph.gui.dialogs.datatable.NodeDataTableModel
NodeFormats - Class in info.bioinfweb.treegraph.document.format
NodeFormats() - Constructor for class info.bioinfweb.treegraph.document.format.NodeFormats
NodeLadderizeComparable - Class in info.bioinfweb.treegraph.document
  This class is a wrapper class for `Node`-objects that allowws them to be compared by their number of terminal subnodes.
NodeLadderizeComparable(Node, boolean) - Constructor for class info.bioinfweb.treegraph.document.NodeLadderizeComparable
nodeMargin - Variable in class info.bioinfweb.treegraph.document.format.GlobalFormats
nodeMarginInput - Variable in class info.bioinfweb.treegraph.gui.dialogs.GlobalFormatsDialog
NodeNameAdapter - Class in info.bioinfweb.treegraph.document.nodedata
NodeNameAdapter() - Constructor for class info.bioinfweb.treegraph.document.nodedata.NodeNameAdapter
nodePanel - Variable in class info.bioinfweb.treegraph.gui.dialogs.GlobalFormatsDialog
NodePositionData - Class in info.bioinfweb.treegraph.document
NodePositionData() - Constructor for class info.bioinfweb.treegraph.document.NodePositionData
nodePresent - Variable in class info.bioinfweb.treegraph.gui.treeframe.TreeSelection
nodes - Variable in class info.bioinfweb.treegraph.gui.dialogs.datatable.NodeDataTableModel

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