Uses of Package
info.bioinfweb.treegraph.document

Packages that use info.bioinfweb.treegraph.document

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
info.bioinfweb.treegraph.document.format	Contains classes that store format information of the different document elements.
info.bioinfweb.treegraph.document.format.adapters.color
info.bioinfweb.treegraph.document.format.adapters.distance
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.newick
info.bioinfweb.treegraph.document.io.nexus
info.bioinfweb.treegraph.document.io.phyloxml
info.bioinfweb.treegraph.document.io.tgf
info.bioinfweb.treegraph.document.io.xtg
info.bioinfweb.treegraph.document.nodebranchdata
info.bioinfweb.treegraph.document.undo	Contains all document edits to manipulate the TreeGraph 2 data structure.
info.bioinfweb.treegraph.document.undo.edit
info.bioinfweb.treegraph.document.undo.file
info.bioinfweb.treegraph.document.undo.file.addsupportvalues
info.bioinfweb.treegraph.document.undo.format
info.bioinfweb.treegraph.graphics.export
info.bioinfweb.treegraph.graphics.positionpaint
info.bioinfweb.treegraph.gui.actions	Contains the actions classes used in the TreeGraph 2 GUI.
info.bioinfweb.treegraph.gui.actions.edit
info.bioinfweb.treegraph.gui.actions.file
info.bioinfweb.treegraph.gui.actions.format
info.bioinfweb.treegraph.gui.actions.select
info.bioinfweb.treegraph.gui.actions.view
info.bioinfweb.treegraph.gui.actions.window
info.bioinfweb.treegraph.gui.dialogs	Contains dialogs of the TreeGraph 2 GUI.
info.bioinfweb.treegraph.gui.dialogs.editelement
info.bioinfweb.treegraph.gui.dialogs.elementformats
info.bioinfweb.treegraph.gui.dialogs.io
info.bioinfweb.treegraph.gui.dialogs.io.exporttographic
info.bioinfweb.treegraph.gui.dialogs.nodebranchdatainput
info.bioinfweb.treegraph.gui.dialogs.specialformats
info.bioinfweb.treegraph.gui.mainframe	Contains all classes directly related to the main frame.
info.bioinfweb.treegraph.gui.treeframe	Contains all classes that make up a document window.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.document

AbstractTextElement
This class can be used as the acestor of all classes that represent document elements which contain text or decimal values.

Branch
The entity for a branch.

ConcretePaintableElement

ContrastManager.State

CornerRadiusElement

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

DocumentView

HiddenDataElement

HiddenDataMap

IconLabel

Label

LabelLine

Labels
This class stores the Labels of a Node and provides infomation about whole rows and columns.

Legend

Legends

LineElement

Node
This class represents a node of a tree in the TreeGraph data structure.

NodeLadderizeComparable
This class is a wrapper class for Node-objects that allowws them to be compared by their number of terminal subnodes.

PaintableElement

ScaleBar
This element represents a scale bar for the branch length values.

TextElement

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

TextLabel

Tree
Intances of this class provide an enviroment for the rcursive data-structure of tree-elements without their formats.

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

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

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.document.clipboard

Label

Labels
This class stores the Labels of a Node and provides infomation about whole rows and columns.

Legend

Node
This class represents a node of a tree in the TreeGraph data structure.

Tree
Intances of this class provide an enviroment for the rcursive data-structure of tree-elements without their formats.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.document.format

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Label

Legend

Legends

Node
This class represents a node of a tree in the TreeGraph data structure.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.document.format.adapters.color

Node
This class represents a node of a tree in the TreeGraph data structure.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.document.format.adapters.distance

Node
This class represents a node of a tree in the TreeGraph data structure.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.document.io

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Tree
Intances of this class provide an enviroment for the rcursive data-structure of tree-elements without their formats.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.document.io.newick

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Node
This class represents a node of a tree in the TreeGraph data structure.

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

Tree
Intances of this class provide an enviroment for the rcursive data-structure of tree-elements without their formats.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.document.io.nexus

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Tree
Intances of this class provide an enviroment for the rcursive data-structure of tree-elements without their formats.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.document.io.phyloxml

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

HiddenDataMap

Node
This class represents a node of a tree in the TreeGraph data structure.

Tree
Intances of this class provide an enviroment for the rcursive data-structure of tree-elements without their formats.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.document.io.tgf

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.document.io.xtg

Branch
The entity for a branch.

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

HiddenDataMap

Label

Labels
This class stores the Labels of a Node and provides infomation about whole rows and columns.

Legend

Legends

Node
This class represents a node of a tree in the TreeGraph data structure.

ScaleBar
This element represents a scale bar for the branch length values.

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

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.document.nodebranchdata

Branch
The entity for a branch.

ConcretePaintableElement

HiddenDataMap

Node
This class represents a node of a tree in the TreeGraph data structure.

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

TextLabel

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.document.undo

Branch
The entity for a branch.

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Legend

Node
This class represents a node of a tree in the TreeGraph data structure.

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

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.document.undo.edit

Branch
The entity for a branch.

ConcretePaintableElement

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Label

Labels
This class stores the Labels of a Node and provides infomation about whole rows and columns.

Legend

Node
This class represents a node of a tree in the TreeGraph data structure.

TextElement

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

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.document.undo.file

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Node
This class represents a node of a tree in the TreeGraph data structure.

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

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.document.undo.file.addsupportvalues

Node
This class represents a node of a tree in the TreeGraph data structure.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.document.undo.format

Branch
The entity for a branch.

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Legend

Node
This class represents a node of a tree in the TreeGraph data structure.

PaintableElement

Tree
Intances of this class provide an enviroment for the rcursive data-structure of tree-elements without their formats.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.graphics.export

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.graphics.positionpaint

Branch
The entity for a branch.

ConcretePaintableElement

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Labels
This class stores the Labels of a Node and provides infomation about whole rows and columns.

Legend

Legends

Node
This class represents a node of a tree in the TreeGraph data structure.

ScaleBar
This element represents a scale bar for the branch length values.

TextElement

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.gui.actions

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

PaintableElement

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.gui.actions.edit

ContrastManager
Ensures that document elements (that are e.g. pasted from the clipboard) have a sufficient contrast to the document background.

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Labels
This class stores the Labels of a Node and provides infomation about whole rows and columns.

Legends

Node
This class represents a node of a tree in the TreeGraph data structure.

TextElement

Tree
Intances of this class provide an enviroment for the rcursive data-structure of tree-elements without their formats.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.gui.actions.file

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.gui.actions.format

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.gui.actions.select

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.gui.actions.view

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.gui.actions.window

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.gui.dialogs

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.gui.dialogs.editelement

TextElement

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.gui.dialogs.elementformats

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.gui.dialogs.io

Node
This class represents a node of a tree in the TreeGraph data structure.

Tree
Intances of this class provide an enviroment for the rcursive data-structure of tree-elements without their formats.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.gui.dialogs.io.exporttographic

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.gui.dialogs.nodebranchdatainput

Tree
Intances of this class provide an enviroment for the rcursive data-structure of tree-elements without their formats.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.gui.dialogs.specialformats

Node
This class represents a node of a tree in the TreeGraph data structure.

Tree
Intances of this class provide an enviroment for the rcursive data-structure of tree-elements without their formats.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.gui.mainframe

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

Classes in info.bioinfweb.treegraph.document used by info.bioinfweb.treegraph.gui.treeframe

Branch
The entity for a branch.

ConcretePaintableElement

CornerRadiusElement

Document
Instances of this class contain the data for a tree and its formats as well as position-information for all TreePositioners used with this Document.

DocumentView

IconLabel

Label

Legend

LineElement

Node
This class represents a node of a tree in the TreeGraph data structure.

PaintableElement

ScaleBar
This element represents a scale bar for the branch length values.

TextElement

TextLabel

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