Supporting the SBML layout extension.
BACKGROUND
Researchers studying large or complex biochemical networks would benefit from the ability to automatically create lucid visualizations and store them in a portable and widely accepted format.


CONCLUSIONS
Two modules, SBMLSupportLayout and SBWAutoLayout, support reading, creating, manipulating and writing layout information for biochemical models. SBMLSupportLayout can read, update, add and render model layout information. SBWAutoLayout can automatically layout models, graphically manipulate model layout and generate layout information for models without layout information.


BACKGROUND
SBMLSupportLayout and SBWAutoLayout are distributed with the Systems Biology Workbench (SBW), which can be downloaded from http://www.sys-bio.org. Additionally, their visualization and layout capabilities are available online at http://www.sys-bio.org/Layout. Both modules run on Win32, Linux and the Mac OS X version is forthcoming.
Deckard
Anastasia
A
Keck Graduate Institute, 535 Watson Dr, Claremont, CA 91711, USA.
Bergmann
Frank T
FT
Sauro
Herbert M
HM
D000465:Algorithms; D003198:Computer Simulation; D008954:Models, Biological; D011381:Programming Languages; D015398:Signal Transduction / Q000502:physiology*; D012984:Software; D049490:Systems Biology / Q000379:methods*; D014584:User-Computer Interface