BioSimulators-RBApy documentation

BioSimulators-RBApy provides a BioSimulators-compliant command-line interface to the RBApy tool for Resource Balance Analysis (RBA) simulations. A Docker image for this package is also available.

This command-line interface and Docker image enable users to use RBApy to execute COMBINE/OMEX archives that describe one or more simulation experiments (in SED-ML format) of one or more RBA models in the RBApy format.

A list of the algorithms and algorithm parameters supported by RBApy is available at BioSimulators.

A simple web application and web service for using RBApy to execute COMBINE/OMEX archives is also available at runBioSimulations.

Contents

• Installation instructions
  • Command-line program
  • Docker image with a command-line entrypoint
• Tutorial
  • Creating COMBINE/OMEX archives and encoding simulation experiments into SED-ML
  • Command-line program
  • Docker image with a command-line entrypoint
  • Using BioSimulators-RBApy with a Gurobi license
• API documentation
  • Submodules
  • biosimulators_rbapy.core module
• About BioSimulators-RBApy
  • License
  • Development team
  • Questions and comments
• Index