Brian is a free, open source simulator for spiking neural networks.
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Updated
Jul 14, 2024 - Python
Biological Simulation is the use of computational and mathematical models to simulate biological systems. The underlying complexity of biology necessitates the development of efficient algorithms, knowledge representation methods, visualization techniques, data formats, and computational tools to observe the emergent behaviors of biological systems. The broad scope and variety of time-scales and space-scales requires development of community-driven standards and common formats to enable interoperability and reproducibility of models.
Brian is a free, open source simulator for spiking neural networks.
Blue Brain Python Optimisation Library
A brian2 extension to simulate spiking neural networks on GPUs
An epithelium simulation library
Random walk to calculate the tortuosity tensor of images
BioEn - Bayesian Inference Of ENsembles
Scripts to create cartoons of 3D genomes
🦐🐟🦈 A framework for simulating millions of interacting Lagrangian particles (or microbes!) in a turbulent ocean.
🔮 Predict DNA assembly clone validity rates - powered by Kappa
🌔 Pythonic bindings for the Kappa model simulation language
MNEST (Multi-agent Neuro Evolution Simulation Toolkit) is a software framework designed to model and study emergent behavior in complex systems.
Automatic pathway assembly with the YeastPathwayKit
Cemracs 2018 project (CIRM, July-August 2018)
Model, Data, and Analysis Scripts for "The Evolution of Cooperation by the Hankshaw Effect"
Biological simulation of the digestive system written in python.
Protein Synthesis Project Using Python, BioPython, and BioSQL
Project for the course of Laboratory Mathematical Modelling held by Professor Marchetti (A.Y. 2023-2024) for the master curse Quantitative and Computational Biology (QCB) at university of Trento, italy.
Generator of chromosome sets based on the scientific concepts of human embryonic organism formation
A simple python web application modeling certain kind of gene transformations