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  1. RNA-FM RNA-FM Public

    Nature Methods: RNA foundation model (together with RhoFold)

    Jupyter Notebook 340 38

  2. RhoFold RhoFold Public

    Nature Methods: RhoFold+, Accurate RNA 3D structure prediction using a language model-based deep learning approach

    Python 204 25

  3. Dense-Homolog-Retrieval Dense-Homolog-Retrieval Public

    Nature Biotechnology: Ultra-fast, sensitive detection of protein remote homologs using deep dense retrieval

    Python 121 9

  4. e2efold e2efold Public

    pytorch implementation for "RNA Secondary Structure Prediction By Learning Unrolled Algorithms"

    Python 120 18

  5. RhoDesign RhoDesign Public

    Nature Computational Science: RhoDesign is a structure-to-sequence model for RNA design.

    Jupyter Notebook 53 4

  6. RiboDiffusion RiboDiffusion Public

    ISMB-24/Bioinformatics: Tertiary Structure-based RNA Inverse Folding with Generative Diffusion Models

    Python 51 6

Repositories

Showing 10 of 14 repositories
  • HMD-AMP Public
    ml4bio/HMD-AMP’s past year of commit activity
    Python 0 MIT 1 0 0 Updated Jan 7, 2026
  • CRISP Public

    Nature Computational Science: Predicting drug responses of unseen cell types through transfer learning with foundation models

    ml4bio/CRISP’s past year of commit activity
    Jupyter Notebook 25 MIT 1 4 0 Updated Dec 2, 2025
  • USPNet Public

    Nature Computational Science: Unbiased organism-agnostic and highly sensitive signal peptide predictor with deep protein language model

    ml4bio/USPNet’s past year of commit activity
    Python 35 MIT 2 1 0 Updated Nov 10, 2025
  • RhoFold Public

    Nature Methods: RhoFold+, Accurate RNA 3D structure prediction using a language model-based deep learning approach

    ml4bio/RhoFold’s past year of commit activity
    Python 204 Apache-2.0 25 7 2 Updated May 29, 2025
  • RNA-FM Public

    Nature Methods: RNA foundation model (together with RhoFold)

    ml4bio/RNA-FM’s past year of commit activity
    Jupyter Notebook 340 MIT 38 16 0 Updated May 27, 2025
  • SCMBench Public
    ml4bio/SCMBench’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated May 19, 2025
  • RiboDiffusion Public

    ISMB-24/Bioinformatics: Tertiary Structure-based RNA Inverse Folding with Generative Diffusion Models

    ml4bio/RiboDiffusion’s past year of commit activity
    Python 51 MIT 6 0 0 Updated Nov 17, 2024
  • RhoDesign Public

    Nature Computational Science: RhoDesign is a structure-to-sequence model for RNA design.

    ml4bio/RhoDesign’s past year of commit activity
    Jupyter Notebook 53 MIT 4 3 0 Updated Nov 8, 2024
  • CasAINet Public

    Accurate and explainable detection of Cas proteins via robust large language model and attentive network

    ml4bio/CasAINet’s past year of commit activity
    0 0 0 0 Updated Sep 6, 2024
  • Dense-Homolog-Retrieval Public

    Nature Biotechnology: Ultra-fast, sensitive detection of protein remote homologs using deep dense retrieval

    ml4bio/Dense-Homolog-Retrieval’s past year of commit activity
    Python 121 BSD-3-Clause 9 7 1 Updated Aug 30, 2024

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