#

chemical-master-equation

Here are 12 public repositories matching this topic...

voduchuy / NumCME.jl

Direct solution of the Chemical Master Equation in Julia.

numerical-analysis chemical-master-equation stochastic-reaction-networks finite-state-projection

Updated Oct 29, 2023
Julia

ankitgupta83 / DeepCME

A deep learning framework for solving the Chemical Master Equation

deep-learning chemical-master-equation reaction-networks

Updated Jan 13, 2022
Python

voduchuy / pypacmensl

Python wrapper for PACMENSL.

cython mpi parallel-computing petsc stochasti chemical-master-equation stochastic-reaction-networks

Updated Dec 25, 2023
Cython

voduchuy / pacmensl

Library for parallel direct solution of the Chemical Master Equation (CME).

parallel mpi parallel-computing sundials petsc numerical-analysis chemical-master-equation stochastic-reaction-networks

Updated Dec 25, 2023
C++

Mathbiomed / CASTANET

CASTANET: Computational package for deriving Analytical STAtionary distributions of biochemical reaction networks with NEtwork Translation.

chemical-master-equation stationary-distributions crnt chemical-reaction-network-theory network-translation

Updated Feb 26, 2021
MATLAB

voduchuy / StMcmcCme

This repository contains the Python modules and scripts to reproduce the results in the paper "Catanach, Vo, Munsky. IJUQ 2020."

inference bayesian bayesian-inference mcmc markov-chain-monte-carlo sequential-monte-carlo single-cell-imaging chemical-master-equation multifidelity stochastic-reaction-networks smfish

Updated Jul 28, 2021
Jupyter Notebook

ManuelaCarriero / PyExTra

Implementation of algorithms for simulating gene expression and translation in order to investigate about NF-kB model in colon cancer cells.

python simulation genetic-algorithm gene-expression artificial-intelligence fast-fourier-transform pattern-recognition autocorrelation stochastic-processes stochastic-simulation-algorithm continuous-wavelet-transform chemical-master-equation

Updated Aug 10, 2023
TeX

voduchuy / CudaFsp

CUDA-based implementation of the Finite State Projection (FSP) algorithm.

cuda sundials chemical-master-equation stochastic-reaction-networks

Updated Aug 4, 2021
Cuda

MunskyGroup / Vo_et_al_2023_Matlab

Matlab codes for analyzing and designing single-cell experiments.

uncertainty-quantification fisher-information-matrix model-identification single-cell-experiment chemical-master-equation finite-state-projection

Updated May 3, 2023
MATLAB

voduchuy / Vo_2019_ADAMHFSP

Code to reproduce the numerical results in the manuscript, "Bayesian estimation of stochastic gene expression using multifidelity models "Huy D. Vo*, Zachary R. Fox, Ania A. Baetica, Brian E. Munsky.

matlab mcmc model-reduction chemical-master-equation stochastic-reaction-networks delayed-acceptance

Updated Feb 16, 2022
MATLAB

voduchuy / KrylovFspSsa

Fortran implementation of the Krylov-FSP-SSA algorithm for solving the Chemical Master Equation.

numerical-methods stochastic-simulation-algorithm gillespie-algorithm krylov-subspace-approximation chemical-master-equation stochastic-reaction-networks

Updated Jul 29, 2021
Fortran

locuoco / stochastic-chemical-kinetics

Stochastic chemical kinetics using Gillespie algorithm and chemical master equation, application to enzyme kinetics

enzyme computational-biology chemical-kinetics physical-chemistry stochastic-processes stochastic-simulation-algorithm chemical-reactions gillespie-algorithm michaelis-menten enzyme-kinetics chemical-master-equation

Updated Oct 30, 2023
C++

Improve this page

Add a description, image, and links to the chemical-master-equation topic page so that developers can more easily learn about it.

Curate this topic

Add this topic to your repo

To associate your repository with the chemical-master-equation topic, visit your repo's landing page and select "manage topics."