BioSimulators utils documentation¶
Command-line application and high-level utilities for reading, writing, validating, and executing COMBINE/OMEX format files that contain descriptions of simulations in Simulation Experiment Description Markup Language (SED-ML) format with models in formats such as the BioNetGen Language (BNGL) and the Systems Biology Markup Language (SBML).
Contents¶
- Installation instructions
- Tutorial for the command-line application
- Convert an Escher metabolic map to a Vega data visualization
- Convert a GINML activity flow diagram to a Vega data visualization
- Convert a SBGN process description map to a Vega data visualization
- Validate a modeling project
- Execute a modeling project with a standardized simulation tool from the BioSimulators registry
- Additional documentation
- API documentation
- About BioSimulators utils
- Index