SimTK OpenSim C++ libraries and command-line applications, and Java/Python wrapping.
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Updated
Jul 18, 2024 - C++
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.
SimTK OpenSim C++ libraries and command-line applications, and Java/Python wrapping.
Brian is a free, open source simulator for spiking neural networks.
A platform for sharing and reusing biomodeling studies including models, simulations, and visualizations of their results
This project was developed as a personal research project after my Master's degree. It aims to explore the intersection of quantum biology and the effects of radiation on fungal species, leveraging advanced data analysis and simulation techniques.
A brian2 extension to simulate spiking neural networks on GPUs
Blue Brain Python Optimisation Library
Code for "Identification of the Mode of Evolution in Incomplete Carbonate Successions"
Bottom-up dynamical modeling of biological systems using ordinary, partial, and stochastic differential equations.
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.
Modelling and Optimization of Models with a focus on Healthcare and Biological Networks
Mimic the behaviors of biological neurons using pytorch
Examples of BrainPy
Scripts to create cartoons of 3D genomes
Biological evolution simulator
An epithelium simulation library
BioEn - Bayesian Inference Of ENsembles
Genetic Algorithm that simulates natural selection & evolution visually with a custom-built algorithm
3D Spiking neural network simulation exploring Spike Timing Dependent Plasticity (STDP)
Neuronal Simulation of the Granule Cell Layer within the Cerebellar Cortex