- High performance simulation
- Forward sensitivity analysis
- Parameter identifiability analysis
- Automatic creation of MEX simulation functions for SBmodels
- Easy installation and use
- Works on all by MATLAB supported operating systems
License Information
SBaddon is free for Non-Commercial Use. Please read the license for more information. Commercial use of SBaddon is only possible through a specific licensing agreement (contact sbaddon@fcc.chalmers.se).
Requirements
SBaddon requires at least MATLAB R14 SP3 (>= Version 7.1).
Benchmark: SBaddon vs. ODE15S
To display the improvement of the simulation speed, obtained through SBaddon in comparison to the fastest MATLAB solver ODE15S, a benchmark was performed for three different models. The computer used was a DELL Latitude D610, Centrino 2GHz, 512MB RAM 800MHz, Windows XP.The MATLAB script that was used is available in the SBaddon distributions examlpe folder.
| Model 1 | Model 2 | Model 3 | |
|---|---|---|---|
| Model description | Novak Tyson cell-cycle model | Full-scale model of glycolysis in yeast | Model 14 from the Biomodels.net database |
| End time (TEND) | 1000 | 50 | 300 |
| Number simulation points (NRPOINTS) | 1000 | 200 | 300 |
| Average time ODE15S [ms] | |||
| Average time SBaddon [ms] | |||
| Speedup by SBaddon | |||
News / History
- 14/11/2006 Bugfix in SBAOparamcorr.
- 09/11/2006 Handling the MATLAB '^' power operator.
- 14/10/2006 MEX simulation functions (and SBAOsenssim) are now able to determine sensitivities to initial conditions. New function getstateindicesSBAO.
- 03/10/2006 Version 1.1
- 06/06/2006 Minor bug fix in MEX/CVODES interface.
- 08/05/2006 Allowed the specification of an output function that is called after each integration step.
- 25/03/2006
- SBAOsimulate and SBAOsenssim can be run also directly on SBmodels.
- Evaluation of numerical identifiability based on parameter correlations SBAOparamcorr.
- 1/03/2006 Added forward sensitivity analysis.
- 1/02/2006 Version 1.0 First release.