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alubbock / packages

Package Name Access Summary Updated
PyDAS public A Python wrapper to several differential algebraic system solvers 2025-03-25
cupsoda public cupSODA is a black-box deterministic simulator of biological systems for NVIDIA graphics cards (GPUs), using the CUDA framework. 2025-03-25
stochkit-lite public StochKit is an extensible stochastic simulation framework developed in C++ that aims to make stochastic simulation accessible to practicing biologists and chemists, while remaining open to extension via new stochastic and multiscale algorithms. 2025-03-25
atomizer public Project for the translation of SBML files into BNGL files 2025-03-25
stochkit public StochKit is an extensible stochastic simulation framework developed in C++ that aims to make stochastic simulation accessible to practicing biologists and chemists, while remaining open to extension via new stochastic and multiscale algorithms. 2025-03-25
kappa public Kappa is a rule-based language for modeling systems of interacting agents. 2025-03-25
graphviz public Graphviz is open source graph visualization software 2025-03-25
pygraphviz public PyGraphviz is a Python interface to the Graphviz graph layout and visualization package. 2025-03-25
pysb public PySB (pronounced "Pie Ess Bee") is a framework for building rule-based mathematical models of biochemical systems. It works nicely with scientific Python libraries such as NumPy, SciPy and SymPy for model simulation and analysis. 2025-03-25
nfsim public NFsim is a network-free stochastic simulator for biochemical reaction networks 2025-03-25
bionetgen public BioNetGen is software for the specification and simulation of rule-based models of biochemical systems 2025-03-25

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