Kinetic Simulation Algorithm Ontology

A classification of algorithms for simulating biology, their parameters, and their outputs

OntoBee AberOWL OLS OLS BioPortal OntoBee Bioregistry

The Kinetic Simulation Algorithm Ontology (KiSAO) describes algorithms for simulating models in biology, their parameters, and their outputs.

Products
kisao.owl
Usages
User
https://sed-ml.org/
Description
The Simulation Experiment Description Markup Language (SED-ML) is a language for describing simulations and visualizations of their results.
Type
annotation
Examples
Several examples of simulations encoded in SED-ML
User
https://biosimulations.org/
Description
BioSimulations is a repository of biosimulation projects.
Type
annotation
Examples
Simulation of a synthetic oscillatory biochemical network
User
https://run.biosimulations.org/
Description
runBioSimulations is a web application for execution biological simulations.
Type
annotation
Examples
Example simulation runs
User
https://biosimulators.org/
Description
BioSimulators is a registry of biosimulation tools.
Type
annotation
See also
https://arxiv.org/abs/2203.06732
Examples
tellurium is a software tool for kinetic simulation of biochemical networks