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@labstructbioinf

Laboratory of Structural Bioinformatics

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The amount of biological data available from different experimental approaches (genome and transcriptome sequencing, structure determination, functional assays) is enormous. In our group, we use computational techniques such as deep learning, molecular dynamics simulations and sequence analysis to make sense of this data. We are particularly interested in understanding how protein folds have evolved and how protein structures and functions are encoded by the 20 amino acid alphabet.

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  1. localpdb localpdb Public

    Python package to manage protein structures and their annotations

    Python 39 5

  2. pLM-BLAST pLM-BLAST Public

    Detection of remote homology by comparison of protein language model representations

    Python 35 5

  3. DeepCoil DeepCoil Public

    Fast and accurate prediction of coiled coil domains in protein sequences. ​

    Python 21 1

  4. EdgeGat EdgeGat Public

    graph neural network layer for Deep Graph Library with pytorch backend

    Python 21 3

  5. rossmann-toolbox rossmann-toolbox Public

    Prediction and re-engineering of the cofactor specificity of Rossmann-fold proteins

    Python 11 2

  6. PiPred PiPred Public

    Deep learning based prediction of pi-helices in protein sequences

    Python 10 1

Repositories

10 results for all repositories written in Python sorted by last updated
Showing 10 of 10 repositories
  • pLM-BLAST Public

    Detection of remote homology by comparison of protein language model representations

    labstructbioinf/pLM-BLAST’s past year of commit activity
    Python 35 MIT 5 5 0 Updated Jul 27, 2024
  • localpdb Public

    Python package to manage protein structures and their annotations

    labstructbioinf/localpdb’s past year of commit activity
    Python 39 MIT 5 0 0 Updated Feb 22, 2024
  • dc2_oligo Public

    Prediction of oligomeric state of coiled-coil domains

    labstructbioinf/dc2_oligo’s past year of commit activity
    Python 2 MIT 0 0 0 Updated Jan 18, 2024
  • DeepCoil Public

    Fast and accurate prediction of coiled coil domains in protein sequences. ​

    labstructbioinf/DeepCoil’s past year of commit activity
    Python 21 1 1 0 Updated Dec 17, 2023
  • rossmann-toolbox Public

    Prediction and re-engineering of the cofactor specificity of Rossmann-fold proteins

    labstructbioinf/rossmann-toolbox’s past year of commit activity
    Python 11 MIT 2 1 0 Updated Nov 5, 2023
  • PiPred Public

    Deep learning based prediction of pi-helices in protein sequences

    labstructbioinf/PiPred’s past year of commit activity
    Python 10 1 0 5 Updated Mar 24, 2023
  • Uni-Fold Public Forked from dptech-corp/Uni-Fold

    An open-source platform for developing protein models beyond AlphaFold.

    labstructbioinf/Uni-Fold’s past year of commit activity
    Python 0 Apache-2.0 65 0 0 Updated Nov 25, 2022
  • samcc_turbo Public

    Software for automatic detection and measurement of coiled coils in PDB structures.

    labstructbioinf/samcc_turbo’s past year of commit activity
    Python 3 MIT 2 0 0 Updated Sep 2, 2022
  • EdgeGat Public

    graph neural network layer for Deep Graph Library with pytorch backend

    labstructbioinf/EdgeGat’s past year of commit activity
    Python 21 3 0 0 Updated Oct 18, 2021
  • MDDesign Public

    Set of scripts that facilitate molecular dynamics aided screening of the models generated with Rosetta and selection of the structural ensembles that can be used as input in protein design simulations.

    labstructbioinf/MDDesign’s past year of commit activity
    Python 2 2 0 0 Updated Jul 4, 2017

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