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TBD This important for keeping the diagrams from becoming too cluttered.
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AllanKuchinsky - 2007-01-23 04:39:32
 
This is similar to the first neighbors functionality in Cytoscape (Select -> Mouse Drag Selects -> Nodes -> First Neighbors of Selected Nodes).  Should be straightforward to implement.

Use Case Name : ../PathBranching

For Feature : MIMEditor

Editors: DavidKane

<<TableOfContents: execution failed [Argument "maxdepth" must be an integer value, not "[2]"] (see also the log)>>

Summary

User wants to compactly layout many contigency relationships for the same species

Step-by-Step User Action

  1. User specifies a contigency relationship (e.g. ../ProcessStimulation, ../ShowInhibition)

  2. User specifies a second contigency relationship of the same type with the same species origin
  3. User joins the two relationships with a branch
  4. User moves the branch point to a convenient location

Visual Aides

The following example has several branches, but the clearest are the several ../EnzymaticStimulation relationships from ATM. Instead of four edges going from ATM to the four species it stimulates, there is one edge that branches three times.

pathbranching1_061120_dwk.png

Requirements for Cytoscape

TBD

Importance

This important for keeping the diagrams from becoming too cluttered.

Other Examples

Comments

Shared ../MimEditorUseCaseComments

BioPax representation TBD


AllanKuchinsky - 2007-01-23 04:39:32

This is similar to the first neighbors functionality in Cytoscape (Select -> Mouse Drag Selects -> Nodes -> First Neighbors of Selected Nodes).  Should be straightforward to implement.

Molecular_Interaction_Maps/PathBranching (last edited 2009-02-12 01:03:08 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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