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Summary
A user wants to describe a membrane-enclosed compartment
Step-by-Step User Action
- User specifies a boundary to partition the compartments
- User optionally specifies a label for the compartments
Visual Aides
A membrane boundary is represented with a thick, double-walled line. It can either partition the entire map, as in this example:
attachment:compartment1_061115_dwk.png
Alternately, the compartment can completely enclose a region on a map, as in this example:
attachment:compartment2_061115_dwk.png
Requirements for Cytoscape
TBD
We are unsure to what degree components in the map need to be aware of what compartments they appear in.
Importance
Compartments play an important role in describing transportation functions. They also interact with other elements in the Transport and ProteinDomains use cases.
Other Examples
Comments
Shared MimEditorUseCaseComments
It is not clear how to represent the compartments in BioPax. PageComment2