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Exporting computational models out of jinkō

You can export compuational models from jinkō in various formats.

SBML​

SBML is the standard format for representing biological models. It is a widely used format in the field of systems biology and is supported by many software tools.

All levels from L1V1 to L3V2 are supported. notably if you are exporting for using the model in simbiology, we recommend using L2V4.

Simbiology has some issues with large SBML models and we make no guarantee that the export will work in Simbiology off the bat.

JSON​

JSON is a lightweight data-interchange format. It is easy for humans to read and write. It is easy for machines to parse and generate. It is based on a subset of the JavaScript Programming Language Standard ECMA-262 3rd Edition - December 1999.

We also support the export of the differential model in JSON format. This is useful when you want to see the aggregated equations per species or parameters involved in the LHS of the equations, for instance when you have species involved across several Reactions.

Julia (beta)​

Julia is a high-level, high-performance dynamic programming language for numerical computing. It provides a sophisticated compiler, distributed parallel execution, numerical accuracy, and an extensive mathematical function library.

Some of the features of jinkō that are not yet supported in Julia are:

  • Algebraic equations
  • Events
  • Delays

Not supported yet: XLSX (SimBiology-compliant spreadsheets)​

Please let us know if you need this feature.