Projects

Updated 6 months ago

parpe • Rank 6.6 • Science 85%

Parameter estimation for dynamical models using high-performance computing, batch and mini-batch optimizers, and dynamic load balancing.

amici dynamical-modeling hacktoberfest high-performance-computing ode optimization parameter-estimation petab sbml systems-biology

Updated 6 months ago

https://github.com/biosimulators/biosimulators_copasi • Rank 10.8 • Science 36%

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

biochemical-networks biosimulators combine-archive computational-biology copasi docker dynamical-modeling omex-metadata python sbml sed-ml simulation systems-biology

Updated 6 months ago

https://github.com/biosimulators/biosimulators_tellurium • Rank 8.9 • Science 13%

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

biochemical-networks biosimulators combine-archive computational-biology docker dynamical-modeling libroadrunner omex-metadata python sbml sed-ml simulation systems-biology tellurium

Updated 6 months ago

https://github.com/biosimulators/biosimulators_bionetgen • Rank 8.6 • Science 10%

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

biochemical-networks bionetgen biosimulators combine-archive docker dynamical-modeling network-free-simulation omex-metadata rule-based-modeling sed-ml simulation stochastic-simulation-algorithm systems-biology

Updated 4 months ago

NonSysId: Nonlinear System Identification with Improved Model Term Selection for NARMAX Models • Science 93%

NonSysId: Nonlinear System Identification with Improved Model Term Selection for NARMAX Models - Published in JOSS (2025)

autoregressive-models dynamical-modeling dynamical-systems forward-selection machine-learning narmax narx nonlinear-dynamics orthogonal-forward-regression system-identification time-series time-series-forecasting

ecosyste.ms

Data

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Applications

Experiments

Open Source Science

parpe • Rank 6.6 • Science 85%

https://github.com/biosimulators/biosimulators_copasi • Rank 10.8 • Science 36%

https://github.com/biosimulators/biosimulators_tellurium • Rank 8.9 • Science 13%

https://github.com/biosimulators/biosimulators_bionetgen • Rank 8.6 • Science 10%

NonSysId: Nonlinear System Identification with Improved Model Term Selection for NARMAX Models • Science 93%