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@OpenFreeEnergy Open Free Energy

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    44 repositories

    • gufe

      Public
      core data models of the Open Free Energy ecosystem
      Python
      •
      MIT License
      •10•40•114•23•Updated Jan 6, 2026Jan 6, 2026

    • ExampleNotebooks

      Public
      Notebooks demonstrating how to do simple tasks related to free energy calculations.
      Jupyter Notebook
      •
      MIT License
      •10•57•39•8•Updated Jan 6, 2026Jan 6, 2026

    • openfe

      Public
      The Open Free Energy toolkit
      molecular-dynamicscomputational-chemistryfree-energybiophysicsfree-energy-calculations
      Python
      •
      MIT License
      •35•236•347•39•Updated Jan 6, 2026Jan 6, 2026

    • konnektor

      Public
      Algorithms for various Network Layouts and Tooling for planning FE Calculations
      pythonfree-energy-calculationsnetwork-planningopenfe
      Jupyter Notebook
      •
      MIT License
      •5•20•28•8•Updated Jan 5, 2026Jan 5, 2026

    • alchemiscale.org-site

      Public
      source files and deployment automation for the alchemiscale.org static site
      CSS
      •0•0•1•0•Updated Jan 5, 2026Jan 5, 2026

    • pontibus

      Public
      Experimental OpenFE Protocols for Force Field Evaluation
      Python
      •
      MIT License
      •2•5•66•2•Updated Jan 5, 2026Jan 5, 2026

    • openfe-gromacs

      Public
      Gromacs-based protocols for Open Free Energy
      Python
      •
      MIT License
      •1•4•23•3•Updated Jan 5, 2026Jan 5, 2026

    • feflow

      Public
      Recipes and protocols for molecular free energy calculations using the openmmtools/perses and Open Free Energy toolkits
      Python
      •
      MIT License
      •3•15•46•7•Updated Jan 5, 2026Jan 5, 2026

    • cinnabar

      Public
      Package for consistent reporting of relative free energy results
      Python
      •
      MIT License
      •14•40•60•7•Updated Jan 5, 2026Jan 5, 2026

    • openfreeenergy.github.io

      Public
      HTML
      •3•1•15•2•Updated Jan 5, 2026Jan 5, 2026

    • openfe_analysis

      Public
      Python
      •
      MIT License
      •1•12•26•6•Updated Dec 19, 2025Dec 19, 2025

    • alchemiscale.org-deployment

      Public
      deployment versioning and artifact generation for alchemiscale.org alchemiscale instances
      Dockerfile
      •
      MIT License
      •0•0•5•1•Updated Dec 17, 2025Dec 17, 2025

    • alchemiscale

      Public
      a high-throughput alchemical free energy execution system for use with HPC, cloud, bare metal, and Folding@Home
      distributed-computingdrug-discoveryalchemistry
      Python
      •
      Other
      •10•32•68•11•Updated Dec 17, 2025Dec 17, 2025

    • alchemiscale-dashboard

      Public
      a user-facing dashboard for alchemiscale
      MIT License
      •0•1•0•1•Updated Dec 11, 2025Dec 11, 2025

    • stratocaster

      Public
      Python
      •
      MIT License
      •1•0•7•1•Updated Dec 4, 2025Dec 4, 2025

    • kartograf

      Public
      This package contains tools for setting up hybrid-topology FE calculations
      pythonfree-energy-calculationshybrid-topologyopenfeatom-mapping
      Python
      •
      MIT License
      •7•33•27•3•Updated Dec 3, 2025Dec 3, 2025

    • alchemiscale-fah

      Public
      protocols and compute service for using alchemiscale with Folding@Home
      distributed-computingdrug-discoveryalchemistry
      Python
      •
      MIT License
      •0•2•8•0•Updated Dec 2, 2025Dec 2, 2025

    • Lomap

      Public
      Alchemical mutation scoring map
      Python
      •
      MIT License
      •16•40•44•0•Updated Nov 21, 2025Nov 21, 2025

    • exorcist

      Public
      Daemonless campaign-scale simulation orchestration
      Python
      •
      MIT License
      •1•0•10•4•Updated Oct 27, 2025Oct 27, 2025

    • ofe-sphinx-theme

      Public
      Sphinx theme for Open Free Energy software based on the PyData theme.
      SCSS
      •
      MIT License
      •0•1•0•0•Updated Oct 17, 2025Oct 17, 2025

    • openfe-usrse-demo

      Public
      Notebook presentation for USRSE 2025
      Jupyter Notebook
      •
      MIT License
      •0•1•0•0•Updated Oct 7, 2025Oct 7, 2025

    • IndustryBenchmarks2024

      Public
      Repository for the 2024 OpenFE industry benchmark efforts
      Jupyter Notebook
      •
      MIT License
      •22•28•11•3•Updated Oct 3, 2025Oct 3, 2025

    • performance_benchmarks

      Public
      Performance benchmarks for OpenFE Protocols
      Jupyter Notebook
      •
      MIT License
      •0•1•3•0•Updated Sep 29, 2025Sep 29, 2025

    • openfe-benchmarks

      Public
      Jupyter Notebook
      •
      MIT License
      •1•10•33•4•Updated Jun 10, 2025Jun 10, 2025

    • openfe_protocol_utils

      Public
      Utilities for OpenFE Protocols
      Python
      •
      MIT License
      •0•0•0•0•Updated Jun 4, 2025Jun 4, 2025

    • .github

      Public
      Default OpenFE community files
      MIT License
      •0•0•0•0•Updated Feb 21, 2025Feb 21, 2025

    • openmmtools

      Public
      A batteries-included toolkit for the GPU-accelerated OpenMM molecular simulation engine.
      Python
      •
      MIT License
      •86•2•0•0•Updated Jan 7, 2025Jan 7, 2025

    • protein-ligand-benchmark

      Public
      Protein-Ligand Benchmark Dataset for Free Energy Calculations
      Python
      •
      MIT License
      •18•1•3•0•Updated Jul 1, 2024Jul 1, 2024

    • OMSF_workshop2024

      Public
      Materials and assets for the 2024 OMSF workshop
      MIT License
      •0•5•0•0•Updated May 16, 2024May 16, 2024

    • openfe_skunkworks

      Public
      experimental toybox
      Python
      •
      MIT License
      •1•3•2•1•Updated Apr 18, 2024Apr 18, 2024