Code behind the work "Single Cortical Neurons as Deep Artificial Neural Networks", published in Neuron 2021

Finite State Projection algorithms for chemical reaction networks

Development version of phaseR, an R package for phase plane analysis of one- and two-dimensional autonomous ODE systems

iCodon customizes gene expression based on the codon composition

Code behind the work "Multiple Synaptic Contacts Combined with Dendritic Filtering Enhance Spatio-Temporal Pattern Recognition of Single Neurons", bioRxiv 2022

Virtual population generation, fitting, and benchmarking.

In silico therapeutic target discovery using network attractors: avoiding pathological phenotypes

Python toolkit for Bayesian parameter inference, model calibration, and model selection using Nested Sampling

An object-oriented model of the workings of the human body written in java and scala

A repository for the final project in MathBio class, exploring the dynamics of natural pattern adaptation through the lens of a cellular automata model. Contains code, documentation, and resources related to the project.

Implementation of a PINN solver for biological differential equations

4 dimensional model for neuronal modelling in Julia

Simulation of agents competing for resources with different strategies

Bayesian inference of stochastic cellular processes with and without memory in Python.

Analysis pipeline for single-cell RNA sequencing (scRNA-seq) data focused on T cells in COVID-19. Includes scripts and workflows for data processing, visualization, and identifying immune cell signatures and responses. Designed to accelerate reproducible research in immunology and single-cell genomics.

A Game Theoretic Approach For Rendering Immersive Experiences In The Metaverse

Streaming over networks

Mini project (5ECTS) as part of the MSc Biology (University of Groningen), aiming to increase the efficeincy and speed of DAISIE model simulations.

Generate a unique lifeform concept based on the user-provided specifications and `hydrogen` as the primary element, without relying on existing biological knowledge.

R language for Human Performance Analysis