Differences between revisions 2 and 8 (spanning 6 versions)
Revision 2 as of 2005-12-05 19:23:26
Size: 515
Editor: mskresolve-b
Comment:
Revision 8 as of 2006-05-31 21:15:17
Size: 1100
Editor: KeiichiroOno
Comment:
Deletions are marked like this. Additions are marked like this.
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  * {{{MetaNodes}}}, Phase 2
  * Attribute Based Layout
  * Multi-colored nodes
  * Better hide/show for edges/ nodes
  * Real-time vizmapper update
  * KEGG Reader / Reaction node + editor
  * Interactive Slider Widget
  * Visual Legend
  * Standardize context menus for nodes/edges
  * Network specific node and edge attributes
 * Meta Nodes, Phase 2
 * Attribute Based Layout
 * Multi-colored nodes
 * Better hide/show for edges/ nodes
 * Real-time vizmapper update
 * KEGG Reader / Reaction node + editor
 * Expression Matrix reader for more data formats (MIAME)
 * I
nteractive Slider Widget
 * Visual Legend
 * Standardize context menus for nodes/edges
 * Network specific node and edge attributes
 * Generic Preference System and inteligent UI for the new preference data structure
 * Tree Object viewer in Browser (For GO data)
 * Background Task support (for compressing session file)
 * Headless mode, Phase 2 (Web Service?)
Line 14: Line 19:
  * New GraphObject class; for nodes/edges
  * Formalize what goes in the core
  * Improving / Refactoring Event Model
 * New {{{GraphObject}}} class; for nodes/edges
 * Define what the Edge ID is
 * Formalize what goes in the core
 * Improving / Refactoring Event Model
 * Remove the "GO Level" idea from Gene Ontology Server
 * Remove legacy code from GO Server
 * Expression Matrix must use CyAttribute instead of redundant data structure.
 * Unit tests/swing unit tests + more automated build system that includes building of plugins.

Features

  • Meta Nodes, Phase 2
  • Attribute Based Layout
  • Multi-colored nodes
  • Better hide/show for edges/ nodes
  • Real-time vizmapper update
  • KEGG Reader / Reaction node + editor
  • Expression Matrix reader for more data formats (MIAME)
  • Interactive Slider Widget
  • Visual Legend
  • Standardize context menus for nodes/edges
  • Network specific node and edge attributes
  • Generic Preference System and inteligent UI for the new preference data structure
  • Tree Object viewer in Browser (For GO data)
  • Background Task support (for compressing session file)
  • Headless mode, Phase 2 (Web Service?)

Refactoring / Design Issues

  • New GraphObject class; for nodes/edges

  • Define what the Edge ID is
  • Formalize what goes in the core
  • Improving / Refactoring Event Model
  • Remove the "GO Level" idea from Gene Ontology Server
  • Remove legacy code from GO Server
  • Expression Matrix must use CyAttribute instead of redundant data structure.

  • Unit tests/swing unit tests + more automated build system that includes building of plugins.

Cytoscape_2.4_and_Beyond (last edited 2009-02-12 01:03:05 by localhost)

Funding for Cytoscape is provided by a federal grant from the U.S. National Institute of General Medical Sciences (NIGMS) of the Na tional Institutes of Health (NIH) under award number GM070743-01. Corporate funding is provided through a contract from Unilever PLC.

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