Cytoscape Wiki|
← Revision 4 as of 2007-05-30 23:15:46
Size: 2903
Comment:
|
← Revision 5 as of 2009-02-12 01:03:12
Size: 2902
Comment: converted to 1.6 markup
|
| Deletions are marked like this. | Additions are marked like this. |
| Line 9: | Line 9: |
| || '''For Feature''' : Self:MIMEditor || | || '''For Feature''' : [[MIMEditor]] || |
| Line 17: | Line 17: |
| [[TableOfContents([2])]] | <<TableOfContents([2])>> |
<<TableOfContents: execution failed [Argument "maxdepth" must be an integer value, not "[2]"] (see also the log)>>
Summary
A user wants to see a Kohn representation of a BioPAX pathway.
Step-by-Step User Action
- User selects a BioPAX document to view
- The system uses an automated layout program to generate a map using the Kohn notation
Visual Aides
Requirements for Cytoscape
TBD
Importance
Although many of the use cases are cast in terms of editing, this use case could provide a good shorter-term capability that could be useful to both BioPAX-oriented users, and work out the implementation details for representing the Kohn notation.
Other Examples
Many software engineering tools have these sorts of autodraw features from underlying models. E.g. drawing a class diagram from XMI or drawing an ERD from an underlying database.
Comments
Shared ../MimEditorUseCaseComments
Used by ../AssistedLayout
AllanKuchinsky - 2007-01-22 05:29:23
Assume this can be handled by programmatic calls to one or more of the Cytoscape automated layout routines? Is incremental/interactive layout via BubbleRouter applicable as well?