Omex Python Packages

biosimulators-utils

Utilities for building standardized command-line interfaces for biosimulation software packages

biomodels

Python library to download and cache models from BioModels

biosimulators-amici

BioSimulators-compliant command-line interface to the AMICI simulation program <https://github.com/AMICI-dev/amici>.

biosimulators-pysces

BioSimulators-compliant command-line interface to the PySCeS simulation program <http://pysces.sourceforge.net/>.

biosimulators-boolnet

BioSimulators-compliant command-line interface to the BoolNet simulation program.

biosimulations-modeldb

Command-line program for publishing the ModelDB model repository to BioSimulations.

biosimulators-pyneuroml

BioSimulators-compliant command-line interface to the jNeuroML/pyNeuroML, NEURON, and NetPyNe simulation programs.

biosimulators-cbmpy

BioSimulators-compliant command-line interface to the CBMPy simulation program <http://cbmpy.sourceforge.net/>.

biosimulators-xpp

BioSimulators-compliant command-line interface to the XPP simulation program.

biosimulators-masspy

BioSimulators-compliant command-line interface to the MassPY simulation program <https://masspy.readthedocs.io/>.

biosimulators-opencor

BioSimulators-compliant command-line interface to the OpenCOR simulation program.

biosimulators-ginsim

GINsim biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container

biosimulations-bigg

Command-line program and scheduled GitHub action for publishing the BiGG model repository to BioSimulations

biosimulators-rbapy

RBApy biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container