Stochastic Simulation Python Packages

crn-jax

Chemical reaction networks in JAX: a lightweight, GPU-optimized Gillespie/SSA simulation library.

uc-sgsim

An uncondition random field generation tools that are easy to use

mantis-delta

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

pinetree

🌲 a flexible gene expression simulator with codon-specific translation rates

openuv

Open-source EUV lithography simulator in Python/PyTorch: Mo/Si mirror, thin-mask and RCWA mask diffraction, partially coherent imaging, chemically amplified resist (Dill, PEB, development) with stochastic LER/LWR, process window and calibration. Every physical default has a named source. Browser GUI and REST API. Apache-2.0.

pyrbm

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

interaction-inference

Inference of interaction between genes using constrained optimization

noisefloat

A Python library for stochastic validation and rounding error simulation