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@durrantlab

Durrant Lab

The Durrant lab at the University of Pittsburgh develops and applies broadly applicable, innovative techniques for computer-aided drug discovery.

Popular repositories

  1. gypsum_dl gypsum_dl Public

    Gypsum-DL is a free, open-source program that converts 1D and 2D small-molecule representations (SMILES strings or flat SDF files) into 3D models. It outputs models with alternate ionization, tauto…

    Python 20 5

  2. autogrow4 autogrow4 Public

    AutoGrow4 is an open-source program for semi-automated computer-aided drug discovery. It uses a genetic algorithm to evolve predicted ligands on demand and so is not limited to a virtual library of…

    Python 16 5

  3. subpex subpex Public

    SubPEx (Sub-Pocket Explorer) is a tool to enhance ensemble (multiple-receptor/relaxed-complex) virtual screening. It uses weighted ensemble path sampling and molecular dynamics simulations to accel…

    Python 8 1

  4. dimorphite_dl dimorphite_dl Public

    Dimorphite-DL adds hydrogen atoms to molecular representations, as appropriate for a user-specified pH range. It is a fast, accurate, accessible, and modular open-source program for enumerating sma…

    Python 7 3

  5. pyrite pyrite Public

    Pyrite is a Blender plugin that imports the atomic motions captured by molecular dynamics simulations. Using Pyrite, these motions can be rendered using Blender's state-of-the-art computer-graphics…

    Python 7 1

  6. deepfrag deepfrag Public

    DeepFrag is a deep convolutional neural network that guides ligand optimization by extending a ligand with a molecular fragment, such that the resulting extension is also highly complementary to th…

    Python 7 4

Repositories

Showing 10 of 29 repositories
  • colab-support-files Public

    A place to put files for easy download into Google Colab.

    Jupyter Notebook 0 1 0 0 Updated Feb 16, 2024
  • censible Public
    Jupyter Notebook 0 GPL-3.0 1 1 0 Updated Feb 9, 2024
  • Jupyter Notebook 0 GPL-3.0 1 0 0 Updated Jan 12, 2024
  • deepfrag Public

    DeepFrag is a deep convolutional neural network that guides ligand optimization by extending a ligand with a molecular fragment, such that the resulting extension is also highly complementary to the receptor. The DeepFrag web application is also a useful tool for teaching students about medicinal chemistry and lead optimization.

    Python 7 Apache-2.0 4 1 0 Updated Dec 22, 2023
  • 3Dmol.js Public Forked from 3dmol/3Dmol.js

    WebGL accelerated JavaScript molecular graphics library

    Jupyter Notebook 0 187 0 0 Updated Dec 22, 2023
  • Jupyter Notebook 0 0 0 0 Updated Dec 12, 2023
  • subpex Public

    SubPEx (Sub-Pocket Explorer) is a tool to enhance ensemble (multiple-receptor/relaxed-complex) virtual screening. It uses weighted ensemble path sampling and molecular dynamics simulations to accelerate binding-pocket sampling.

    Python 8 MIT 1 0 0 Updated Nov 16, 2023
  • wisp Public

    WISP is a trajectory analysis tool that calculates and visualizes allosteric pathways.

    Python 2 0 1 1 Updated Nov 7, 2023
  • blendmol Public

    BlendMol is a Blender plugin that can easily import VMD 'Visualization State' files. BlendMol empowers scientific researchers and artists by marrying molecular visualization and industry-standard rendering techniques. The plugin works seamlessly with a popular analysis program (VMD).

    Python 4 GPL-3.0 0 0 0 Updated Oct 17, 2023
  • gypsum_dl Public

    Gypsum-DL is a free, open-source program that converts 1D and 2D small-molecule representations (SMILES strings or flat SDF files) into 3D models. It outputs models with alternate ionization, tautomeric, chiral, cis/trans isomeric, and ring-conformational states.

    Python 20 Apache-2.0 5 2 0 Updated Oct 13, 2023

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