Use Case Name : ../AssistedLayout

For Feature : MIMEditor

Editors: DavidKane

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A user wants to edit a map using an existing BioPAX document as a starting point.

Step-by-Step User Action

  1. User selects a BioPAX document to edit
  2. The system performs ../AutoDrawBioPax

  3. The user edits the map by repositioning objects on the map
  4. The user edits the map by adding features
  5. The user performs ../EditAnnotation

  6. The user edits the map by removing features and annotations
  7. Steps 3, 4, 5 and 6 are repeated as necessary
  8. The user saves the map
  9. When the map is re-opened all of the layout changes are preserved

Visual Aides

Requirements for Cytoscape



For Kohn maps, which are often used as communication documents, manual layout is important for achieving the desired clarity in the document. However, manual layout can be very tedious, and so having tools to expedite the process are important.

Other Examples


Shared ../MimEditorUseCaseComments

This builds on the ../AutoDrawBioPax and ../EditAnnotation use cases.

AllanKuchinsky - 2007-01-22 05:30:56

basically autolayout + editing?

Molecular_Interaction_Maps/AssistedLayout (last edited 2009-02-12 01:03:09 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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