Chemical reaction network and systems biology interface for scientific machine learning (SciML). High performance, GPU-parallelized, and O(1) solvers in open source software.
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Updated
May 30, 2024 - Julia
Chemical reaction network and systems biology interface for scientific machine learning (SciML). High performance, GPU-parallelized, and O(1) solvers in open source software.
Patient-Specific Modeling in Python
A package for researchers working with biological oscillations
A Python Framework for Modeling and Analysis of Signaling Systems
pymCADRE enables the reconstruction of tissue-specific metabolic models in Python using transcriptomic data and information of the network topology.
CyberUnits is a cross-platform class library for rapid development of high-performance computer simulations in life sciences. It supports modelling for biomedical cybernetics and systems biology with Object Pascal.
The Systems Biology Simulation Core Library (SBSCL) provides an efficient and exhaustive Java implementation of methods to interpret the content of models encoded in the Systems Biology Markup Language (SBML) and its numerical solution.
Ecosystem of Machine-maintained Models with Automated Analysis
Julia interface to BioMASS
Parinsula is an interactive visual simulator of relatively isolated systems, which are a particular type of complex system.
Metabolic Network Toolbox for MATLAB
A text-based computational framework for patient -specific modeling for classification of cancers. iScience (2022).
Lecture SS 2022 - Introduction to various topics in Systems Biology
Simulator for SBML Models
Spatial Model Simulator with SBML Model
An SBML parser written in Rust.
LibSBMLSim: A library for simulating SBML models
Matlab code and data for Enzyme Cost Minimisation
DMS1401ZB Mathematical Systems Biology
Matlab code for resource balance analysis
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