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  1. lightweight-registration lightweight-registration Public

    lwreg is a lightweight registration system for chemical registration and data storage.

    Jupyter Notebook 94 20

  2. Ensembler Ensembler Public

    Ensembler is a python package that provides fast and easy access to 1D and 2D model system simulations. It can be used for method development or to deepen understanding of a broad spectrum of model…

    Python 59 9

  3. GNNImplicitSolvent GNNImplicitSolvent Public

    Implicit Solvent Approach Based on Generalised Born and Transferable Graph Neural Networks for Molecular Dynamics Simulations

    Jupyter Notebook 59 9

  4. GHOST GHOST Public

    Jupyter Notebook 52 13

  5. overlapping_assays overlapping_assays Public

    Code and datasets from the manuscript "Comparing IC50 or Ki values from different sources is a source of significant noise".

    Jupyter Notebook 52 10

  6. amp_bms amp_bms Public

    Python 51 8

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Showing 10 of 58 repositories
  • ML_vs_FEP Public

    Benchmarking basic ML against FEP for protein-ligand binding affinity prediction. Code and data for the paper "Basic Machine Learning vs. FEP: A Comparative Analysis for Protein-Ligand Binding Affinity Prediction". Random forests and 3D-QSAR, plus a meta-learner built on their predictions, are compared to FEP across 19 targets of 16-44 compounds.

    rinikerlab/ML_vs_FEP's past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Oct 31, 2026
  • GNNImplicitSolvent Public

    Implicit Solvent Approach Based on Generalised Born and Transferable Graph Neural Networks for Molecular Dynamics Simulations

    rinikerlab/GNNImplicitSolvent's past year of commit activity
    Jupyter Notebook 59 MIT-0 9 5 0 Updated Oct 19, 2026
  • ALG8-glucosyltransferase Public

    Analysis Code for AMBER trajectory on ALG8

    rinikerlab/ALG8-glucosyltransferase's past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Oct 9, 2026
  • TorsionAngularBinStrings Public

    Torsion Angular Bin Strings: Quantifying flexibility by introducing a discrete vector representation of a conformer's dihedral angles to allow for counting of states.

    rinikerlab/TorsionAngularBinStrings's past year of commit activity
    Jupyter Notebook 18 MIT 3 0 0 Updated Oct 8, 2026
  • lightweight-registration Public

    lwreg is a lightweight registration system for chemical registration and data storage.

    rinikerlab/lightweight-registration's past year of commit activity
    Jupyter Notebook 94 MIT 20 7 1 Updated Oct 5, 2026
  • DASH-tree Public

    Partial Charge assignment for Molecular Dynamics

    rinikerlab/DASH-tree's past year of commit activity
    Python 24 MIT 6 0 2 Updated Aug 11, 2026
  • gromosXX Public Forked from biomos/gromosXX

    md++ code

    rinikerlab/gromosXX's past year of commit activity
    C++ 2 GPL-2.0 8 0 0 Updated Jul 27, 2026
  • rinikerlab/geometrical_EDS's past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Jul 25, 2026
  • SmoothTransformationWithEDS Public

    Code to run and analyze the data for the article "Smoother Alchemical Transformations via Enveloping Distribution Sampling for Free-Energy Estimation"

    rinikerlab/SmoothTransformationWithEDS's past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Jul 22, 2026
  • QM-GNNIS Public

    Graph Neural Network Based Implicit QM Solvent

    rinikerlab/QM-GNNIS's past year of commit activity
    Jupyter Notebook 8 MIT 3 0 0 Updated Jul 18, 2026

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