Code behind the work "Single Cortical Neurons as Deep Artificial Neural Networks", published in Neuron 2021
Finite State Projection algorithms for chemical reaction networks
iCodon customizes gene expression based on the codon composition
Development version of phaseR, an R package for phase plane analysis of one- and two-dimensional autonomous ODE systems
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
Implementation of a PINN solver for biological differential equations
An object-oriented model of the workings of the human body written in java and scala
Simulation of agents competing for resources with different strategies
4 dimensional model for neuronal modelling in Julia
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.
Incorporating statistical shape models into the Coherent Point Drift algorithm
Bayesian inference of stochastic cellular processes with and without memory in Python.
Computational biology framework with DNA-based logic, multi-scale modeling, and geometric constraints. Physics to ecosystem integration.
Streaming over networks
A Game Theoretic Approach For Rendering Immersive Experiences In The Metaverse
R language for Human Performance Analysis
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.
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