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@PDB-REDO

PDB-REDO

Tools for macromolecular structure optimisation and analysis

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  1. dssp dssp Public

    Application to assign secondary structure to proteins

    C++ 245 30

  2. alphafill alphafill Public

    AlphaFill is an algorithm based on sequence and structure similarity that “transplants” missing compounds to the AlphaFold models. By adding the molecular context to the protein structures, the mod…

    C++ 110 21

  3. libcifpp libcifpp Public

    Library containing code to manipulate mmCIF and PDB files

    C++ 42 17

  4. density-fitness density-fitness Public

    Application to calculate the density statistics (RSR, SRSR, RSCCS, EDIAm and OPIA) for x-ray structures

    C++ 8 2

  5. tortoize tortoize Public

    Application to calculate ramachandran z-scores

    C++ 2 1

  6. platonyzer platonyzer Public

    C++ 1 1

Repositories

Showing 10 of 18 repositories
  • libpdb-redo Public

    Library containing shared code for various PDB-REDO programs

    PDB-REDO/libpdb-redo’s past year of commit activity
    C++ 1 BSD-2-Clause 0 0 0 Updated Feb 23, 2026
  • libcifpp Public

    Library containing code to manipulate mmCIF and PDB files

    PDB-REDO/libcifpp’s past year of commit activity
    C++ 42 BSD-2-Clause 17 2 0 Updated Feb 21, 2026
  • cif-tools Public

    A suite of programs to manipulate and examine mmCIF files

    PDB-REDO/cif-tools’s past year of commit activity
    C++ 5 BSD-2-Clause 1 3 1 Updated Feb 18, 2026
  • tortoize Public

    Application to calculate ramachandran z-scores

    PDB-REDO/tortoize’s past year of commit activity
    C++ 2 BSD-2-Clause 1 0 0 Updated Feb 18, 2026
  • platonyzer Public
    PDB-REDO/platonyzer’s past year of commit activity
    C++ 1 BSD-2-Clause 1 0 0 Updated Feb 18, 2026
  • dssp Public

    Application to assign secondary structure to proteins

    PDB-REDO/dssp’s past year of commit activity
    C++ 245 BSD-2-Clause 30 0 0 Updated Feb 18, 2026
  • density-fitness Public

    Application to calculate the density statistics (RSR, SRSR, RSCCS, EDIAm and OPIA) for x-ray structures

    PDB-REDO/density-fitness’s past year of commit activity
    C++ 8 BSD-2-Clause 2 0 0 Updated Feb 18, 2026
  • pdb-redo-session-manager Public

    A session manager for PDB-REDO

    PDB-REDO/pdb-redo-session-manager’s past year of commit activity
    C++ 1 BSD-2-Clause 0 1 0 Updated Feb 10, 2026
  • alphafill Public

    AlphaFill is an algorithm based on sequence and structure similarity that “transplants” missing compounds to the AlphaFold models. By adding the molecular context to the protein structures, the models can be more easily appreciated in terms of function and structure integrity.

    PDB-REDO/alphafill’s past year of commit activity
    C++ 110 BSD-2-Clause 21 3 0 Updated Jan 27, 2026
  • HalBS Public
    PDB-REDO/HalBS’s past year of commit activity
    CMake 0 BSD-2-Clause 1 0 0 Updated Dec 15, 2025

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