Modeling toolkit for biochemical simulation
☆84Jan 23, 2025Updated last year
Alternatives and similar repositories for GillesPy2
Users that are interested in GillesPy2 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Simulation of spatial deterministic/stochastic reaction-diffusion-advection problems embedded in Lagrangian reference frame particle base…☆21Aug 1, 2023Updated 2 years ago
- StochSS - Software as a Service for modeling, simulation, inference and analysis of biochemical models. https://live.stochss.se☆25Jan 28, 2026Updated 3 months ago
- Build and simulate jump equations like Gillespie simulations and jump diffusions with constant and state-dependent rates and mix with dif…☆148Updated this week
- StochPy is a versatile stochastic modeling package which is designed for stochastic simulation of molecular control networks☆44Jun 20, 2025Updated 10 months ago
- Gillespie Stochastic Simulation Algorithm☆14Jun 29, 2013Updated 12 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Workshop tutorials for Pyomo.DoE☆13Updated this week
- StochKit is an extensible tool for stochastic simulation tool with stochastic and multiscale algorithms.☆17Jun 9, 2020Updated 5 years ago
- A Python 3 implementation of Thermodynamics-based Flux Analysis☆45Jul 9, 2025Updated 9 months ago
- Deep exponential families for single-cell data.☆20Apr 23, 2026Updated last week
- ParameterEstimation.jl is a Julia package for estimating parameters and initial conditions of ODE models given measurement data.☆32Updated this week
- Epidemiological modeling framework for pathogen population genetics and evolution.☆18Oct 7, 2024Updated last year
- Python package for working with nucleic acid structural designs.☆16Apr 24, 2018Updated 8 years ago
- Simulation platform of animal embryogenesis☆21Jun 19, 2022Updated 3 years ago
- Deprecated: please use GillesPy2☆12Oct 15, 2019Updated 6 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- COPASI is a software application for simulation and analysis of biochemical networks and their dynamics.☆125Mar 13, 2026Updated last month
- GPU accelerated integrator for large number of independent ordinary differential equation systems☆39Jan 25, 2021Updated 5 years ago
- Compute strain abundance in a defined microbial community☆10Jul 27, 2023Updated 2 years ago
- Python implementation of Underdamped Langevin Inference, a method to infer the dynamical equation of underdamped stochastic systems from …☆17Jun 20, 2025Updated 10 months ago
- PyTorch implementation of RWKV blocks☆31Jul 22, 2025Updated 9 months ago
- Code for Fast Information-theoretic Bayesian Optimisation☆16Jun 7, 2018Updated 7 years ago
- LongSom tool for long-reads☆11May 20, 2025Updated 11 months ago
- Symbolic Kinetic Models with Python☆36Jun 4, 2025Updated 10 months ago
- ODE modelling in Python☆30Apr 1, 2026Updated 3 weeks ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Official implementation of "A novel deep learning-based 3D cell segmentation framework for future image-based disease detection". (Howeve…☆23Apr 10, 2023Updated 3 years ago
- PyMOL plugin to calculate accessible contact volumes on PDB structures☆10Mar 17, 2025Updated last year
- This is the repository for the 2021 uq-bio Summer School☆12May 9, 2022Updated 3 years ago
- ☆13Apr 15, 2026Updated 2 weeks ago
- Solver for two-dimensional conservation equations using the finite volume method in Julia.☆50Apr 24, 2026Updated last week
- Docker images for Chaste☆13Updated this week
- ☆12Aug 30, 2024Updated last year
- BlueBrain's recipe writer to parameterize structure and logic of a mouse whole-neocortex connectome☆10May 13, 2022Updated 3 years ago
- An interactive data table for Pluto.jl notebooks.☆10Nov 22, 2020Updated 5 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- ☆15Aug 23, 2021Updated 4 years ago
- A kotlin/java lib that allows you to read and write MCA files in a clean way☆12Dec 20, 2021Updated 4 years ago
- Highly scalable integration and classification of single-cell RNA sequencing data☆11Dec 27, 2020Updated 5 years ago
- CANAlization: Control & Redundancy in Boolean Networks☆27Apr 14, 2026Updated 2 weeks ago
- Higher-Order Co-occurrence☆12Nov 9, 2021Updated 4 years ago
- Map single-cell transcriptomes to copy number evolutionary trees.☆14Aug 18, 2024Updated last year
- Factorize metagenotypes to infer strains and their abundances☆12Sep 29, 2024Updated last year