SBML and CellML translation in antimony and JSim.
BACKGROUND
The creation and exchange of biologically relevant models is of great interest to many researchers. When multiple standards are in use, models are more readily used and re-used if there exist robust translators between the various accepted formats.


CONCLUSIONS
Antimony 2.4 and JSim 2.10 provide translation capabilities from their own formats to SBML and CellML. All provided unique challenges, stemming from differences in each format's inherent design, in addition to differences in functionality.


METHODS
Both programs are available under BSD licenses; Antimony from http://antimony.sourceforge.net/and JSim from http://physiome.org/jsim/.


BACKGROUND
lpsmith@u.washington.edu.
Department of Bioengineering, University of Washington, Seattle, WA, USA.
Lucian P
LP
Smith
Erik
E
Butterworth
James B
JB
Bassingthwaighte
Herbert M
HM
Sauro
D016000:Cluster Analysis; D003198:Computer Simulation; D008954:Models, Biological; D012984:Software; D049490:Systems Biology / Q000379:methods*