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@lehner-lab

Lehner Lab

Software developed by members of the Lehner lab at the Centre for Genomic Regulation (CRG)

Pinned

  1. DiMSum DiMSum Public

    An error model and pipeline for analyzing deep mutational scanning (DMS) data and diagnosing common experimental pathologies

    R 26 6

  2. doubledeepms doubledeepms Public

    Source code for fitting thermodynamic models (MoCHI), downstream analyses and to reproduce all figures in the following publication: Mapping the energetic and allosteric landscapes of protein bindi…

    R 17 2

  3. RDGVassociation RDGVassociation Public

    Script to (1) perform component extraction via ICA & VAE, (2) perform network analysis, and (3) replicate paper figures from manuscript. Pre-print on bioRxiv: https://www.biorxiv.org/content/10.110…

    R 2

  4. MoCHI MoCHI Public

    Neural networks to fit interpretable models and quantify energies, energetic couplings, epistasis and allostery from deep mutational scanning data

    Python 25 2

  5. Stop_codon_readthrough Stop_codon_readthrough Public

    Source code for computational analyses and to reproduce all figures in the following publication: Genome-scale quantification and prediction of drug-induced readthrough of pathogenic premature term…

    1

  6. krasddpcams krasddpcams Public

    Source code for computational analyses and to reproduce all figures in the following publication: The energetic and allosteric landscape for KRAS inhibition (Weng C, Faure AJ & Lehner B, 2022)

    R 3

Repositories

Showing 10 of 38 repositories
  • domainome Public
    1 0 0 0 Updated Apr 26, 2024
  • src_allostery Public

    Source code for analyses and to reproduce all figures in the following publication: The allosteric landscape of Src (Beltran et al., 2023)

    1 MIT 0 0 0 Updated Apr 26, 2024
  • fuzzy_specificity Public

    Code for "A complete map of specificity encoding for a partially fuzzy protein interaction" by Taraneh Zarin and Ben Lehner

    R 0 MIT 0 0 0 Updated Apr 26, 2024
  • TECAN_analysis Public

    TECAN-reader based yeast growth measurements in R

    R 1 0 0 0 Updated Apr 23, 2024
  • mochims Public

    Source code for analyses and to reproduce all figures in the following publication: MoCHI: neural networks to fit interpretable models and quantify energies, energetic couplings, epistasis and allostery from deep mutational scanning data (Faure AJ & Lehner B, 2024)

    R 0 MIT 0 0 0 Updated Apr 15, 2024
  • DiMSum Public

    An error model and pipeline for analyzing deep mutational scanning (DMS) data and diagnosing common experimental pathologies

    R 26 MIT 6 5 0 Updated Apr 8, 2024
  • deep_indel_mutagenesis Public
    R 0 MIT 0 0 0 Updated Mar 19, 2024
  • fas-indel-library Public
    R 0 0 0 0 Updated Mar 15, 2024
  • whmatrixextms Public

    Source code for analyses and to reproduce all figures in the following publication: An extension of the Walsh-Hadamard transform to calculate and model epistasis in genetic landscapes of arbitrary shape and complexity (Faure AJ, et al., 2023)

    Jupyter Notebook 0 MIT 0 0 0 Updated Mar 8, 2024
  • archstabms Public

    Source code for analyses and to reproduce all figures in the following publication: The genetic architecture of protein stability (Faure AJ et al., 2023)

    R 1 MIT 0 0 0 Updated Feb 23, 2024
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