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  1. 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 47 9

  2. GHOST GHOST Public

    Jupyter Notebook 44 12

  3. lightweight-registration lightweight-registration Public

    Jupyter Notebook 30 12

  4. reeds reeds Public

    This pipeline is executing a RE-EDS run for relative free energy calculations. It can be used for example for calculation of hydration free energies or ligand binding free energies.

    Python 29 8

  5. EquivariantMultipoleGNN EquivariantMultipoleGNN Public

    Equivariant GNN for the prediction of atomic multipoles up to quadrupoles.

    Jupyter Notebook 28 5

  6. 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 26 2

Repositories

Showing 10 of 35 repositories
  • DASH-tree Public

    Partial Charge assignment for Molecular Dynamics

    rinikerlab/DASH-tree’s past year of commit activity
    Python 8 MIT 4 0 0 Updated Jul 8, 2024
  • rinikerlab/lightweight-registration’s past year of commit activity
    Jupyter Notebook 30 MIT 12 6 1 Updated Jul 1, 2024
  • 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 11 MIT-0 2 0 0 Updated Jun 19, 2024
  • rinikerlab/reeds_protonation_tautomers’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Jun 7, 2024
  • C-REMDforFRET Public

    Influence of the fluorophore mobility on distance measurements by gas phase FRET

    rinikerlab/C-REMDforFRET’s past year of commit activity
    Jupyter Notebook 0 MIT-0 0 0 0 Updated Jun 5, 2024
  • rinikerlab/mdfptools’s past year of commit activity
    Jupyter Notebook 7 MIT 2 4 0 Updated Jun 3, 2024
  • 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 modeling methods, from basic sampling techniques to enhanced sampling and free energy calculations. It is easy to install, fast, increases shareability, co…

    rinikerlab/Ensembler’s past year of commit activity
    Python 47 MIT 9 6 1 Updated May 3, 2024
  • molecular_time_series Public

    Code and datasets from the publication https://doi.org/10.1186/s13321-023-00787-9

    rinikerlab/molecular_time_series’s past year of commit activity
    Jupyter Notebook 17 MIT 1 0 0 Updated Apr 21, 2024
  • msms_wrapper Public

    Small python wrapper for the msms program

    rinikerlab/msms_wrapper’s past year of commit activity
    GLSL 3 MIT 0 0 0 Updated Apr 10, 2024
  • rinikerlab/MD_and_NMR_Relaxometry’s past year of commit activity
    Jupyter Notebook 2 MIT 1 0 0 Updated Mar 13, 2024

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