All Packages

Package Summary
Package Description
de.ipk_gatersleben.ag_nw.graffiti  
de.ipk_gatersleben.ag_nw.graffiti.plugins.addons  
de.ipk_gatersleben.ag_nw.graffiti.plugins.algorithms  
de.ipk_gatersleben.ag_nw.graffiti.plugins.algorithms.circle_search  
de.ipk_gatersleben.ag_nw.graffiti.plugins.algorithms.data_mapping  
de.ipk_gatersleben.ag_nw.graffiti.plugins.algorithms.davidtest  
de.ipk_gatersleben.ag_nw.graffiti.plugins.algorithms.exact_fisher_test  
de.ipk_gatersleben.ag_nw.graffiti.plugins.algorithms.graph_generation  
de.ipk_gatersleben.ag_nw.graffiti.plugins.algorithms.hamming_distance
Provides the HammingDistancePlugin, a plugin for computing the hamming distances between graphs.
de.ipk_gatersleben.ag_nw.graffiti.plugins.algorithms.inverse_graph  
de.ipk_gatersleben.ag_nw.graffiti.plugins.algorithms.lines_as_substances  
de.ipk_gatersleben.ag_nw.graffiti.plugins.algorithms.naive_pattern_finder
Provides the NaivePatternFinderPlugin, a plugin for finding given patterns within a given graph.
de.ipk_gatersleben.ag_nw.graffiti.plugins.algorithms.ratioview  
de.ipk_gatersleben.ag_nw.graffiti.plugins.algorithms.shortest_paths  
de.ipk_gatersleben.ag_nw.graffiti.plugins.algorithms.som  
de.ipk_gatersleben.ag_nw.graffiti.plugins.databases  
de.ipk_gatersleben.ag_nw.graffiti.plugins.databases.kegg  
de.ipk_gatersleben.ag_nw.graffiti.plugins.databases.kegg_organisms  
de.ipk_gatersleben.ag_nw.graffiti.plugins.databases.kegg_reaction  
de.ipk_gatersleben.ag_nw.graffiti.plugins.databases.sib_enzymes  
de.ipk_gatersleben.ag_nw.graffiti.plugins.databases.transpath  
de.ipk_gatersleben.ag_nw.graffiti.plugins.databases.transpath.commands  
de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.chart_colors  
de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.chart_settings  
de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.cluster_colors  
de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.compound_image  
de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.font_label_color  
de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.font_label_settings  
de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.font_label_style  
de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.font_settings  
de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_editing  
de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type  
de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.pathway_kegg_operation  
de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.reaction_gui  
de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.kegg.kegg_type.relation_gui  
de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.label_alignment  
de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.url_attribute  
de.ipk_gatersleben.ag_nw.graffiti.plugins.editcomponents.xml_attribute  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.dbe  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.dbe.algorithms  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.dbe.alt_id_statistics  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.dbe.database_processing.go  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.dbe.database_processing.go_cluster_histogram  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.dbe.database_processing.hierarchies  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.dbe.database_processing.kegg_reaction  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.dbe.hierarchy  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.dbe.selectCommands  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.editing_tools  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.editing_tools.script_helper  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.editing_tools.url_attribute_context_commands  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.enhanced_attribute_editors  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.fast_view  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.helper  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.info_dialog_dbe
Contains the Info Dialog for Database Editor and its helper.
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.info_dialog_example
Contains the Info Dialog for IPK-Cluster Analysis. Example Graffiti GUI component plug-in, which uses some deprecated artifacts.
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.ipk_graffitiview  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.ipk_graffitiview.chartDrawComponent  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.kegg_bar  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.launch_gui  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.biomodels  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.dbe  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.dbe.kegg_expression  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.dbe.xlsx  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.dbe.xml_data_tree_table_model  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.genophen  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.helper_classes  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.kegg  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.kegg.special  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.metacrop  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.network  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.statistics  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.layout_control.workflow  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.navigation  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.plugin_settings  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.rotate  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.set_background_color  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.startlayout  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.viewcomponents  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.webstart  
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.zoomfit  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.biopax  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.biopax.lvl3interactions  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.biopax.lvl3utility  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.database.dbe  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.exporters.biopax  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.exporters.metatool  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.exporters.pajek  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.exporters.sbml  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.exporters.sif  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.exporters.xwg_wilma  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.biopax  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.biopax.gui  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.biopax.lvl2interactions  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.biopax.lvl2utility  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.kegg_xml  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.kgml  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.pajek  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.petri_ina_pnt  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.sbml  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.text_list  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.xgmml  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.datatypes  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.kgml.gui  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.ldap  
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.sbml  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.apply_from_graph  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.circle  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.connected_components  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.copy_pattern_layout  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.expand_no_overlapp  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.expand_reduce_space  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.fd_edge_routing  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.fish_eye  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.graph_to_origin_mover  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.grid
Provides the GridLayouterPlugin, a plugin for placing nodes on a grid.
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.grid_placement  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.no_overlapp_as_tim  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.pattern_springembedder  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.pattern_springembedder_no_cache  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.pattern_springembedder.clusterCommands  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.radial_tree  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.random  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.resize_and_grid_layout
Provides the GridLayouterPlugin, a plugin for placing nodes on a grid.
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.rt_tree  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.springembedder_1  
de.ipk_gatersleben.ag_nw.graffiti.plugins.layouters.tree_simple  
de.ipk_gatersleben.ag_nw.graffiti.plugins.misc.add_attributes  
de.ipk_gatersleben.ag_nw.graffiti.plugins.misc.graph_cleanup  
de.ipk_gatersleben.ag_nw.graffiti.plugins.misc.hierarchy  
de.ipk_gatersleben.ag_nw.graffiti.plugins.misc.invert_selection  
de.ipk_gatersleben.ag_nw.graffiti.plugins.misc.label_editing  
de.ipk_gatersleben.ag_nw.graffiti.plugins.misc.link_visualization_legend  
de.ipk_gatersleben.ag_nw.graffiti.plugins.misc.pathway_references  
de.ipk_gatersleben.ag_nw.graffiti.plugins.misc.ppt_exporter  
de.ipk_gatersleben.ag_nw.graffiti.plugins.misc.print  
de.ipk_gatersleben.ag_nw.graffiti.plugins.misc.print.printer  
de.ipk_gatersleben.ag_nw.graffiti.plugins.misc.process_alternative_ids  
de.ipk_gatersleben.ag_nw.graffiti.plugins.misc.scripting  
de.ipk_gatersleben.ag_nw.graffiti.plugins.misc.svg_exporter  
de.ipk_gatersleben.ag_nw.graffiti.plugins.misc.threading  
de.ipk_gatersleben.ag_nw.graffiti.plugins.shapes  
de.ipk_gatersleben.ag_nw.graffiti.services  
de.ipk_gatersleben.ag_nw.graffiti.services.algorithms  
de.ipk_gatersleben.ag_nw.graffiti.services.network  
de.ipk_gatersleben.ag_nw.graffiti.services.task  
de.ipk_gatersleben.ag_nw.graffiti.services.web  
de.ipk_gatersleben.ag_pbi.datahandling  
info.clearthought.layout  
net.iharder.dnd  
org  
org.color  
org.graffiti.attributes  
org.graffiti.core  
org.graffiti.editor
Contains classes for the famous graffiti editor.
org.graffiti.editor.actions
Contains the editor's action classes.
org.graffiti.editor.dialog  
org.graffiti.editor.options
Contains option panes for the editor's option dialog.
org.graffiti.event
Contains event classes and listener interfaces that are used to react to events fired by the graph model.
org.graffiti.graph
Contains graph interfaces and classes.
org.graffiti.graphics  
org.graffiti.help  
org.graffiti.managers  
org.graffiti.managers.pluginmgr
Contains classes for the plugin manager.
org.graffiti.options
Contains the option pane functionality.
org.graffiti.plugin
Contains an interface and an adapter class for a generic plugin.
org.graffiti.plugin.actions  
org.graffiti.plugin.algorithm  
org.graffiti.plugin.attributecomponent  
org.graffiti.plugin.editcomponent  
org.graffiti.plugin.extension  
org.graffiti.plugin.gui  
org.graffiti.plugin.inspector  
org.graffiti.plugin.io
Contains interfaces and classes for reading and writing a graph object in diverse file formats.
org.graffiti.plugin.io.resources  
org.graffiti.plugin.mode  
org.graffiti.plugin.parameter  
org.graffiti.plugin.tool  
org.graffiti.plugin.view  
org.graffiti.plugins.attributecomponents.simplelabel  
org.graffiti.plugins.attributes.defaults  
org.graffiti.plugins.editcomponents.defaults  
org.graffiti.plugins.guis.switchselections  
org.graffiti.plugins.inspectors.defaults  
org.graffiti.plugins.ios.exporters.gml  
org.graffiti.plugins.ios.exporters.gmlxml  
org.graffiti.plugins.ios.exporters.graphml
This package provides a plugin for writing Graphs to files using the graphML format.
org.graffiti.plugins.ios.exporters.graphviz  
org.graffiti.plugins.ios.importers  
org.graffiti.plugins.ios.importers.gml  
org.graffiti.plugins.ios.importers.graphml
This package provides the interface to a plugin for reading Graphs from files using the graphML format.
org.graffiti.plugins.ios.importers.graphml.parser
This package provides the parsing facilities for reading in files in the graphML format.
org.graffiti.plugins.modes.defaultEditMode  
org.graffiti.plugins.modes.defaults  
org.graffiti.plugins.tools.enhancedzoomtool  
org.graffiti.plugins.tools.zoomtool  
org.graffiti.plugins.views.defaults  
org.graffiti.plugins.views.matrix  
org.graffiti.selection
Contains classes for the selection model.
org.graffiti.session
Contains classes, which are needed for the session handling.
org.graffiti.undo  
org.graffiti.util
Contains utility classes for frequently needed functionality.
org.graffiti.util.logging
Contains classes, which make use of JavaTM 2 platform's core logging facilities.
org.jfree.chart
Core classes, including JFreeChart and ChartPanel.
org.jfree.chart.annotations
A framework for addings annotations to charts.
org.jfree.chart.axis
Axis classes and interfaces.
org.jfree.chart.demo  
org.jfree.chart.demo.resources
Resource bundles for the JFreeChart demonstration applications.
org.jfree.chart.entity
Classes representing components of (or entities in) a chart.
org.jfree.chart.event
Event classes and listener interfaces, used to provide a change notification mechanism so that charts are automatically redrawn whenever changes are made to any chart component.
org.jfree.chart.imagemap
Classes for image maps.
org.jfree.chart.labels
Generators and other classes used for the display of item labels and tooltips.
org.jfree.chart.needle
A range of objects that can be used to represent the needle on a CompassPlot.
org.jfree.chart.plot
Plot classes and related interfaces.
org.jfree.chart.renderer
Plug-in renderers for the CategoryPlot and XYPlot classes.
org.jfree.chart.resources
Localised resources for the JFreeChart class library.
org.jfree.chart.title
Classes used to display chart titles and subtitles.
org.jfree.chart.ui
An optional package containing user interface components for editing chart properties (used in the JFreeChart demo application);
org.jfree.chart.urls
Classes for adding URLS to charts for HTML image map generation.
org.jfree.data
Data interfaces and classes.
org.jfree.data.gantt
Data interfaces and classes for Gantt charts.
org.jfree.data.resources
Resource bundles for items that require localisation.
org.jfree.data.statistics
Classes for representing statistical data.
org.jfree.data.time
Interfaces and classes for time-related data.
org.jfree.data.xml
Support for reading datasets from XML files.
org.vanted
Overarching classes, such as preferences and build information.
org.vanted.animation  
org.vanted.animation.animations  
org.vanted.animation.data  
org.vanted.animation.interpolators  
org.vanted.animation.loopers  
org.vanted.indexednodes
Provides graph data structures (and operations on them) that are more efficient for some purposes.
org.vanted.indexednodes.accumulators
Accumulators for org.vanted.indexednodes classes.
org.vanted.osx
Mac OS X support classes.
org.vanted.plugins.layout.adaptagrams  
org.vanted.plugins.layout.adaptagrams.edgerouting  
org.vanted.plugins.layout.multilevelframework
A layout algorithm to Vanted that implements the multi-level graph layout framework.
org.vanted.plugins.layout.stressminimization
A layout algorithm to Vanted that implements stress minimization.
org.vanted.plugins.layout.stressminimization.parameters
Algorithm parameters for StressMinimizationPlugin.
org.vanted.scaling
High DPI (4K and above) Swing Support: GUI, helpers, controllers (loader, regulator, coordinator, etc.).
org.vanted.scaling.resources
High DPI (4K and above) Swing Support: scaling-relevant resources.
org.vanted.scaling.scalers
High DPI (4K and above) Swing Support: Look and Feel specific scalers.
org.vanted.scaling.scalers.component
High DPI (4K and above) Swing Support: GUI Components scalers.
org.vanted.scaling.vanted
High DPI (4K and above) Swing Support: Classes responsible for Vanted components scaling and feature integration.
org.vanted.updater
Updates-providing classes and helpers.
placement  
qmwi.kseg.som  
qmwi.kseg.som.diagram  
scenario  
unit_test_support  
vanted_feature