Welcome to tellurium’s documentation!

Model, simulate, and analyse biochemical systems using a single tool. To view the documentation on libRoadRunner, please go here.

Supported by NIGMS R01-GM123032

Contents:

• Installation
  • Installation Options
• Quick Start
  • Simple Example
  • More Complex Example
• Walkthrough
  • Notebook Walkthrough
  • Advanced Topics
  • Notebook Troubleshooting
  • Further Reading
  • IDE Walkthrough
  • Advanced Topics on Tellurium Spyder
  • Tellurium Spyder Troubleshooting
  • Further Reading
  • Additional Resources for Tellurium
  • Learning Python
• Usage Examples
  • Basics
  • Models & Model Building
  • Simulation and Analysis Methods
  • SED-ML
  • COMBINE & Inline OMEX
  • Modeling Case Studies
  • Miscellaneous
• Antimony Reference
  • Table of contents
  • Background
  • Change Log
  • Introduction and Basics
  • Model Elements
  • Simulating Models
  • Signals
  • Language Reference
  • Layout and Render
  • Appendix: Converting between SBML and Antimony
  • Further Reading
• Parameter Scan
  • Loading a Model
  • Class Methods
  • Example
  • Properties
  • SteadyStateScan
• Tellurium Methods
  • Installing Packages
  • Utility Methods
  • Model Loading
  • Interconversion Utilities
  • Export Utilities
  • Stochastic Simulation
  • Math
  • ODE Extraction Methods
  • Plotting
  • Model Reset
  • jarnac Short-cuts
  • Test Models
  • Running external tools
  • Model Methods
• API
  • DumpJSONInfo()
  • VersionDict()
  • addFileToCombineArchive()
  • addFilesToCombineArchive()
  • antimonyToCellML()
  • antimonyToSBML()
  • cellmlToAntimony()
  • cellmlToSBML()
  • colorCycle()
  • convertAndExecuteCombineArchive()
  • convertCombineArchive()
  • createCombineArchive()
  • executeInlineOmex()
  • executeInlineOmexFromFile()
  • exportInlineOmex()
  • extractFileFromCombineArchive()
  • getDefaultPlottingEngine()
  • getEigenvalues()
  • getLastReport()
  • getTelluriumVersion()
  • getTestModel()
  • getVersionInfo()
  • inIPython()
  • listTestModels()
  • loadAntimonyModel()
  • loadCellMLModel()
  • loadSBMLModel()
  • loadTestModel()
  • loada()
  • loads()
  • model()
  • noticesOff()
  • noticesOn()
  • plotArray()
  • plotWithLegend()
  • printVersionInfo()
  • sbmlToAntimony()
  • sbmlToCellML()
  • setDefaultPlottingEngine()
  • setLastReport()
  • setSavePlotsToPDF()
• libRoadRunner Documents
• SimpleSBML Documents
• FAQ
• Appendix
  • Source Code Repositories
  • License
  • Contact
  • Funding
  • Acknowledgments

Indices and tables

• Index

• Module Index

• Search Page