Stochastic Simulation Python Packages

sde-sim-rs

Powerful and flexible stochastic differential equation (quasi) Monte-Carlo simulation library written in Rust with Python bindings

crn-jax

Chemical reaction networks in JAX: GPU-parallel stochastic simulations.

mantis-delta

A Python library for Chemical Reaction Network Theory (CRNT) bridging network topology with symbolic mass-action kinetics and algebraic stability certification.

uc-sgsim

Random Field Generation

pinetree

stochastic simulation of gene expression with site-specific translation rates

pyrbm

A Python framework to build and simulate stochastic rules-based models.

interaction-inference

Inference of interaction between genes using constrained optimization