Index
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D
- de.unijena.cheminf.scaffolds - package de.unijena.cheminf.scaffolds
- DEFAULT_ARE_NODES_LABELLED - Static variable in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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Default setting value for whether to label nodes with their index and level in the created graphs.
- DEFAULT_CDK_DEPICTION_GENERATOR - Static variable in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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Default CDK depiction generator used to create structure images for the graph nodes
- DEFAULT_GRAPH_ID - Static variable in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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Default ID given to the created graphs if no ID is given.
- DEFAULT_GRAPH_STYLE_SHEET - Static variable in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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Default style sheet that is used for the created graphs if no custom style is defined.
- DEFAULT_GRAPHSTREAM_UI - Static variable in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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Default graph viewer used for visualisation.
- displayWithGraphStream(ScaffoldNodeCollectionBase) - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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The ScaffoldNodeCollectionBase (scaffold network or tree) is displayed in an application window using GraphStream.
- displayWithGraphStream(ScaffoldNodeCollectionBase, boolean) - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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The ScaffoldNodeCollectionBase (scaffold network or tree) is displayed in an application window using GraphStream.
- displayWithGraphStream(ScaffoldNodeCollectionBase, boolean, DepictionGenerator) - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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The ScaffoldNodeCollectionBase (scaffold network or tree) is displayed in an application window using GraphStream.
- displayWithGraphStream(ScaffoldNodeCollectionBase, boolean, DepictionGenerator, String) - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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The ScaffoldNodeCollectionBase (scaffold network or tree) is displayed in an application window using GraphStream.
- displayWithGraphStream(ScaffoldNodeCollectionBase, boolean, DepictionGenerator, String, String) - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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The ScaffoldNodeCollectionBase (scaffold network or tree) is displayed in an application window using GraphStream.
G
- generateGraphFromScaffoldNodeCollection(ScaffoldNodeCollectionBase) - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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The ScaffoldNodeCollectionBase (scaffold network or tree) is parsed into a GraphStream Graph object with nodes depicting the scaffolds.
- generateGraphFromScaffoldNodeCollection(ScaffoldNodeCollectionBase, boolean) - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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The ScaffoldNodeCollectionBase (scaffold network or tree) is parsed into a GraphStream Graph object with nodes depicting the scaffolds.
- generateGraphFromScaffoldNodeCollection(ScaffoldNodeCollectionBase, boolean, DepictionGenerator) - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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The ScaffoldNodeCollectionBase (scaffold network or tree) is parsed into a GraphStream Graph object with nodes depicting the scaffolds.
- generateGraphFromScaffoldNodeCollection(ScaffoldNodeCollectionBase, boolean, DepictionGenerator, String) - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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The ScaffoldNodeCollectionBase (scaffold network or tree) is parsed into a GraphStream Graph object with nodes depicting the scaffolds.
- generateGraphFromScaffoldNodeCollection(ScaffoldNodeCollectionBase, boolean, DepictionGenerator, String, String) - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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The ScaffoldNodeCollectionBase (scaffold network or tree) is parsed into a GraphStream Graph object with nodes depicting the scaffolds.
- generateGraphFromScaffoldNodeCollection(ScaffoldNodeCollectionBase, boolean, DepictionGenerator, String, Graph) - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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The ScaffoldNodeCollectionBase (scaffold network or tree) is parsed into a GraphStream Graph object with nodes depicting the scaffolds.
- getGraphStreamDisplayFolder() - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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Folder to store screenshots, temporary image files, etc.
- getTempFolder() - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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Folder for temporary files like the node structure depictions.
- GRAPH_NODE_PROPERTY_KEY_SCAFFOLD_NODE_BASE_INSTANCE - Static variable in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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the cdk-scaffold ScaffoldNodeBase instances represented by a node in the created graph is stored under this property key.
- GraphStreamUtility - Class in de.unijena.cheminf.scaffolds
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Contains functionalities to visualise CDK-Scaffold-generated scaffold networks and trees in a very basic way, employing the open GraphStream graph library.
S
- screenshotGraph(Graph, String) - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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Creates a screenshot of the given graph using the "ui.screenshot" attribute.
- screenshotGraphHighQuality(Graph, String) - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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Creates a high quality screenshot of the given graph using the FileSinkImages method writeAll().
- screenshotGraphHighQuality(Graph, String, FileSinkImages) - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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Creates a high quality screenshot of the given graph using the FileSinkImages method writeAll().
- setGraphStreamDisplayFolder(File) - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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Sets the folder to store screenshots, temporary image files, etc.
- setTempFolder(File) - Static method in class de.unijena.cheminf.scaffolds.GraphStreamUtility
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Sets the folder for temporary files like the node structure depictions.
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