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    21 repositories

    • AlphaJudge

      Public
      AlphaJudge is a pipeline that evaluates AlphaFold-predicted protein complexes by combining AI-derived confidence metrics (ipTM, pDockQ, PAE, etc.) with physics-…
      Python
      •
      GNU General Public License v3.0
      •2•15•2•1•Updated Oct 20, 2026Oct 20, 2026

    • AlphaPulldownSnakemake

      Public
      Python
      •
      GNU General Public License v3.0
      •3•10•1•1•Updated Oct 20, 2026Oct 20, 2026

    • AlphaPulldown

      Public
      Python
      •
      GNU General Public License v3.0
      •58•327•1•1•Updated Oct 19, 2026Oct 19, 2026

    • mosaic

      Public
      Analyze and model biomembranes from 3D structural data.
      Python
      •
      GNU General Public License v2.0
      •2•10•7•1•Updated Oct 19, 2026Oct 19, 2026

    • pyTME

      Public
      Python
      •
      GNU General Public License v2.0
      •4•28•4•0•Updated Oct 16, 2026Oct 16, 2026

    • alphafold3

      Public
      Python
      •
      Apache License 2.0
      •0•0•0•0•Updated Oct 7, 2026Oct 7, 2026

    • alphafold

      Public
      Open source code for AlphaFold.
      Python
      •
      Apache License 2.0
      •3k•0•0•0•Updated Oct 6, 2026Oct 6, 2026

    • alphapulldown-input-parser

      Public
      Fold specification parser for AlphaPulldown
      Python
      •
      MIT License
      •2•0•0•0•Updated Sep 4, 2026Sep 4, 2026

    • af3x

      Public
      Custom fork of AlphaFold 3 enabling explicit modeling of crosslinks
      Python
      •
      Other
      •1.4k•22•4•0•Updated Sep 2, 2026Sep 2, 2026

    • aplit

      Public
      Python
      •1•2•0•0•Updated Aug 26, 2026Aug 26, 2026

    • AlphaLink2

      Public
      AlphaLink2: Integrating crosslinking MS data into Uni-Fold-Multimer
      Python
      •
      Creative Commons Attribution 4.0 International
      •21•1•0•0•Updated Aug 5, 2025Aug 5, 2025

    • colabseg

      Public
      Jupyter-based tool for membrane segmentation manipulation
      Jupyter Notebook
      •
      Apache License 2.0
      •3•10•1•0•Updated Jul 9, 2025Jul 9, 2025

    • embo_integrative_course2024

      Public
      Materials for the EMBO integrative course, November 2024 (https://www.embl.org/about/info/course-and-conference-office/events/stb24-01/)
      Python
      •0•0•0•0•Updated Apr 16, 2025Apr 16, 2025

    • alphafold3x

      Public
      Explicit crosslinks in AlphaFold 3
      Python
      •
      Other
      •1.4k•23•1•0•Updated Mar 17, 2025Mar 17, 2025

    • openfold-doctor

      Public
      Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2
      Python
      •
      Apache License 2.0
      •694•2•0•0•Updated Oct 28, 2024Oct 28, 2024

    • AnnotationsApp

      Public
      Scripts and a web app for annotating proteins
      HTML
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Sep 1, 2024Sep 1, 2024

    • ribosomeTemplateMatching

      Public
      Python
      •1•0•0•0•Updated May 18, 2024May 18, 2024

    • pytme_publication

      Public
      Python
      •1•3•0•0•Updated Oct 25, 2023Oct 25, 2023

    • AlphaTools

      Public
      Just a list of AlphaFold, RoseTTAfold and related tools
      1•7•0•0•Updated May 16, 2022May 16, 2022

    • ScNPC2020

      Public
      GNU General Public License v3.0
      •0•0•0•0•Updated May 11, 2020May 11, 2020

    • XlinkAnalyzerX

      Public
      Xlink Analyzer for ChimeraX
      Python
      •
      BSD 2-Clause "Simplified" License
      •0•1•0•0•Updated May 9, 2017May 9, 2017
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