Fortran implementation of the Krylov-FSP-SSA algorithm for solving the Chemical Master Equation.
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Updated
Jul 29, 2021 - Fortran
Fortran implementation of the Krylov-FSP-SSA algorithm for solving the Chemical Master Equation.
Simplest simulation to use non-Exponential transitions
Numba accelerated implementation of Gillespie's algorithm for simulating stochastic processes
Efficient discrete random distribution for C++. The implementation uses array-based sum tree to allow fast sampling and updates of weighted events.
Stochastic chemical kinetics using Gillespie algorithm and chemical master equation, application to enzyme kinetics
This repository contains code for simulatuing 'miRNA-mediated negative feedback loop' model, given in the manuscript 'Effects of miRNA-mediated negative feedback on gene expression', using Gillespie algorithm
automatized generation of optimized Gillespie algorithm
Code to simulate a stochastic system using the Gillespie algorithm with comparisons to the mean field model and steady state analysis.
Gillespie simulations of advantageous drivers & deleterious passengers in cancer
Stochastic simulation of CRISPR nucleases cleaving a pool of DNA or RNA
Scalable stochastic simulation of chemical networks
A simulation of the propagation of a virus using the Gillespie algorithm
Stochastic Simulator of Chemical Reactions
Bottom-up dynamical modeling of biological systems using ordinary, partial, and stochastic differential equations.
Network approach to simulate epidemic infection in a bus - station system
Simulate evolutionary biology models with Gillespie algorithm.
Code and reading materials related to my BIOL0044 MSci Investigative Project at the Lane Origins lab.
A new implementation of a well-known stochastic model for carcinogenesis, augmented with competition dynamics and spatial structuring.
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