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| 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 | 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 | 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 | Contains classes implementing the import from and export to the Newick format. |
| info.bioinfweb.treegraph.document.io.nexus | Contains classes implementing the import from and export to the Nexus format. |
| info.bioinfweb.treegraph.document.io.phyloxml | Contains classes implementing the import from the phyloXML format. |
| 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 | Contains classes implementing reading and writing of TreeGraph 2 documents. |
| 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.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 | The classes in this package implement the export of a tree document to the different supported graphic formats. |
| info.bioinfweb.treegraph.graphics.positionpaint |
The classes in this package implement the output of an TreeGraph 2 document with Graphics2D. |
| 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. |
|
| DocumentChangeEvent
Event that indicates all types of changes in TreeGraph 2 document. |
|
| DocumentListener
Classes implementing this interface can listen to changes made in a TreeGraph 2 document. |
|
| GraphicalLabel
Abstract precursor of all graphical labels which allows to independently access the graphical label formats. |
|
| 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
|
|
| PieChartLabel
Represents a pie chart label. |
|
| PieColorManager
Defines the default colors for the pies in pie chart labels. |
|
| ScaleBar
This element represents a scale bar for the branch length values. |
|
| TextElement
Implemented by all document elements which contains textual or numeric values. |
|
| TextElementData
This class is used to store data of tree elements which can either be a string or a decimal value. |
|
| TextLabel
|
|
| Tree
Instances of this class provide an environment for the recursive 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
Instances of this class provide an environment for the recursive 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
Instances of this class provide an environment for the recursive 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
Instances of this class provide an environment for the recursive 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
Instances of this class provide an environment for the recursive 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
Instances of this class provide an environment for the recursive 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. |
|
| PieChartLabel
Represents a pie chart label. |
|
| 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. |
|
| PieChartLabel
Represents a pie chart label. |
|
| TextElement
Implemented by all document elements which contains textual or numeric 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.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
Instances of this class provide an environment for the recursive 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
Implemented by all document elements which contains textual or numeric values. |
|
| 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
Implemented by all document elements which contains textual or numeric values. |
|
| Tree
Instances of this class provide an environment for the recursive 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 | |
|---|---|
| GraphicalLabel
Abstract precursor of all graphical labels which allows to independently access the graphical label formats. |
|
| TextElement
Implemented by all document elements which contains textual or numeric values. |
|
| 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
Instances of this class provide an environment for the recursive 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
Instances of this class provide an environment for the recursive 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
Instances of this class provide an environment for the recursive 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 | |
|---|---|
| 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. |
|
| DocumentChangeEvent
Event that indicates all types of changes in TreeGraph 2 document. |
|
| DocumentListener
Classes implementing this interface can listen to changes made in a TreeGraph 2 document. |
|
| Node
This class represents a node of a tree in the TreeGraph data structure. |
|
| PaintableElement
|
|
|
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