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Found 2 results

Executable

viva-simbio

A process-bigraph wrapper for simbio that represents chemical reaction networks using Antimony or reaction specifications, rebuilds Antimony through libantimony and libSBML, and integrates the resulting ODEs with simbio's LSODA solver. Species concentrations are exposed through shared stores and emitted as additive per-step deltas.

molecularpopulation
Eran Agmon
Oct 2026
Executable

Vivarium-chemotaxis

A Vivarium model integrating receptor activity, flagellar motility, gene expression, transport, metabolism, membrane potential, growth, and division for Escherichia coli chemotaxis.

molecularcellularpopulation
Eran Agmon + 1 other
Oct 2026
1 Publication
MISM — Multiscale Immune Systems Modeling

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Research reported on this website is supported by the National Institute of Allergy and Infectious Diseases (NIAID) of the National Institutes of Health under award number U54AI191253. The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health.

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