A platform for sharing and reusing biomodeling studies including models, simulations, and visualizations of their results
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Updated
Aug 24, 2024 - TypeScript
A platform for sharing and reusing biomodeling studies including models, simulations, and visualizations of their results
A Python Framework for Modeling and Analysis of Signaling Systems
Patient-Specific Modeling in Python
FindSim - A Framework for Integrating Neuronal Data and Signaling Models
Tool for validating that biosimulation software tools implement the BioSimulators standards for simulators
MetEvolSim (Metabolome Evolution Simulator). A Python package to simulate the long-term evolution of metabolic levels.
Context-sensitive creation of kinetic equations in biochemical networks
COBRApy biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
COPASI biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
R package associated with paper "Component response rate variation underlies the stability of highly complex finite systems" (Duthie, AB. 2020. Sci. Rep. 10:8296, https://www.nature.com/articles/s41598-020-64401-w). This repository contains all manuscript text and supplemental information, and all code for recreating analyses.
tellurium biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
BioNetGen biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
GillesPy2 biochemical network simulation program via BioSimulators-compliant command-line interface and Docker container
Another Genetic Circuit Transcriber
Julia interface to BioMASS
Tropical Sensitivity Scores
This repository is used to determine the settling time of a given biochemical reaction network using the approach described in the manuscript "An Automated Model Reduction Method for Biochemical Reaction Networks" published in "Symmetry".
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