chemical-master-equation

There are 0 repository under chemical-master-equation topic.

voduchuy / NumCME.jl
Direct solution of the Chemical Master Equation in Julia.
chemical-master-equation finite-state-projection numerical-analysis stochastic-reaction-networks
Language:Julia 8
ankitgupta83 / DeepCME
A deep learning framework for solving the Chemical Master Equation
deep-learning reaction-networks chemical-master-equation
Language:Python 3
voduchuy / pypacmensl
Python wrapper for PACMENSL.
stochasti stochastic-reaction-networks chemical-master-equation parallel-computing mpi petsc cython
Language:Cython 3
Mathbiomed / CASTANET
CASTANET: Computational package for deriving Analytical STAtionary distributions of biochemical reaction networks with NEtwork Translation.
crnt stationary-distributions chemical-reaction-network-theory network-translation chemical-master-equation
Language:MATLAB 1
voduchuy / pacmensl
Library for parallel direct solution of the Chemical Master Equation (CME).
stochastic-reaction-networks chemical-master-equation parallel-computing mpi petsc numerical-analysis sundials parallel
Language:C++ 1
voduchuy / StMcmcCme
This repository contains the Python modules and scripts to reproduce the results in the paper "Catanach, Vo, Munsky. IJUQ 2020."
sequential-monte-carlo stochastic-reaction-networks markov-chain-monte-carlo multifidelity bayesian-inference mcmc bayesian inference chemical-master-equation single-cell-imaging smfish
Language:Jupyter Notebook 1
locuoco / stochastic-chemical-kinetics
Stochastic chemical kinetics using Gillespie algorithm and chemical master equation, application to enzyme kinetics
chemical-kinetics chemical-master-equation chemical-reactions enzyme enzyme-kinetics gillespie-algorithm michaelis-menten stochastic-processes stochastic-simulation-algorithm computational-biology physical-chemistry
Language:C++ 0
ManuelaCarriero / PyExTra
Implementation of algorithms for simulating gene expression and translation in order to investigate about NF-kB model in colon cancer cells.
artificial-intelligence autocorrelation continuous-wavelet-transform fast-fourier-transform gene-expression python simulation stochastic-processes stochastic-simulation-algorithm pattern-recognition chemical-master-equation genetic-algorithm
Language:TeX 0
voduchuy / CudaFsp
CUDA-based implementation of the Finite State Projection (FSP) algorithm.
chemical-master-equation cuda stochastic-reaction-networks sundials
Language:Cuda 0
MunskyGroup / Vo_et_al_2023_Matlab
Matlab codes for analyzing and designing single-cell experiments.
chemical-master-equation finite-state-projection fisher-information-matrix model-identification single-cell-experiment uncertainty-quantification
Language:MATLAB
voduchuy / KrylovFspSsa
Fortran implementation of the Krylov-FSP-SSA algorithm for solving the Chemical Master Equation.
chemical-master-equation gillespie-algorithm krylov-subspace-approximation numerical-methods stochastic-reaction-networks stochastic-simulation-algorithm
Language:Fortran
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.
chemical-master-equation delayed-acceptance matlab mcmc model-reduction stochastic-reaction-networks
Language:MATLAB