Computational Systems Biology
Sauro Lab
University of Washington
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Software Downloads:

1. SBW
2. JDesigner
3. Jarnac
4. WinSCAMP
5. Matlab Interface
6. Optimization
6. Bifurcation
 
maintained by Frank Bergmann
 
 
 
 

roadRunner

roadRunner is a high performance cellular network simulation. roadRunner accepts standard SBML Level 2 and generates the necessary ordinary differential equations that are solved either by CVODE to generate time course data or NLEQ to compute the steady state.

roadRunner supports many functions, including:

  1. ODE simulation and steady state analysis
  2. Conservation analysis to ensure a non-singular Jacobian
  3. Steady state metabolic control analysis
  4. Frequency domain metabolic control analysis
  5. Simple continuation of steady states

roadRunner is of primary interest to developers by way of providing a standard simulation resource for SBW. Non-developers can access roadRunner from either JDesigner and SimDriver or for more technically minded users, scripting languages such as Python or Matlab.

roadRunner has no graphical user interface but runs as a background service, accepted SBML models and generating solutions. The screen shot shown here is taken from an inspector screen shot illustrating some of the SBW method functions available in roadRunner. roadRunner supports three levels from the SBW simulator API.

:sbw:roadrunner:roadrunner_main_600w.jpg

Installation

roadRunner is installed with SBW. For more information see the SBW installation page.

roadRunner is written in C# and has been ported to Linux and Mac OS using Mono. roadRunner is fully supported on Windows, Mac OS X, and Linux.

Documentation & Help

 
sbw/roadrunner.txt · Last modified: 2007/01/12 07:48 (external edit)
 

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