## page was renamed from Cytoscape 2.3 User Manual
## page was renamed from Cytoscape 2.2 User Manual
## page was renamed from Cytoscape User Manual

<<TableOfContents(3)>>
<<Include(/Title_Page,"Cytoscape User Manual")>>
<<Include(/Introduction,"Introduction")>>
<<Include(/Launching_Cytoscape,"Launching Cytoscape")>>
<<Include(/Quick_Tour,"Quick Tour of Cytoscape")>>
  <<Anchor(command_line_args)>>
<<Include(/Command_Line_Arguments,"Command Line Arguments")>>
  <<Anchor(properties)>>
<<Include(/Preferences,"Cytoscape Preferences")>>
<<Include(/Creating_Networks,"Creating Networks")>>
<<Include(/Network_Formats,"Supported Network File Formats")>>
<<Include(/Attributes,"Node and Edge Attributes")>>
<<Include(/Attribute_Formulas,"Attribute Functions and Equations")>>
<<Include(/Expression_Data,"Loading Gene Expression (Attribute Matrix) Data")>>
<<Include(/ImportingNetworksFromWebServices, "Importing Networks and Attributes from External Databases")>>
<<Include(/Navigation_Layout,"Navigation and Layout")>>
<<Include(/Visual_Styles,"Visual Styles")>>
<<Include(/Filters,"Finding and Filtering Nodes and Edges")>>
<<Include(/Network_Editor,"Editing Networks")>>
<<Include(/Nested_Networks, "Nested Networks")>>
<<Include(/Plugins,"Plugins and the Plugin Manager")>>
<<Include(/CytoPanels,"CytoPanels")>>
  <<Anchor(renderer)>>
<<Include(/Rendering_Engine,"Rendering Engine")>>
<<Include(/Annotation,"Annotation")>>
<<Include(/Linkout,"Linkout")>>
  <<Anchor(acknowledgements)>>
<<Include(/Acknowledgements,"Acknowledgements")>>
<<Include(/Old_Annotation_Server,"Appendix A: Old Annotation Server Format")>>
<<Include(/LGPL_License,"Appendix B: GNU Lesser General Public License")>>
<<Include(How_to_increase_memory_for_Cytoscape,"Appendix C: Increasing memory for Cytoscape")>>