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  1. RNA-FM RNA-FM Public

    Nature Methods: RNA foundation model (together with RhoFold)

    Jupyter Notebook 255 28

  2. RhoFold RhoFold Public

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

    Python 124 14

  3. e2efold e2efold Public

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

    Python 113 19

  4. Dense-Homolog-Retrieval Dense-Homolog-Retrieval Public

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

    Python 102 6

  5. RiboDiffusion RiboDiffusion Public

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

    Python 43 6

  6. RhoDesign RhoDesign Public

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

    Jupyter Notebook 34 3

Repositories

Showing 10 of 13 repositories
  • CRISP Public
    Jupyter Notebook 0 0 0 0 Updated Apr 2, 2025
  • HMD-AMP Public
    Python 0 MIT 0 0 0 Updated Mar 31, 2025
  • USPNet Public

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

    Python 31 MIT 2 1 0 Updated Dec 20, 2024
  • RhoFold Public

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

    Python 124 Apache-2.0 14 3 1 Updated Dec 19, 2024
  • RNA-FM Public

    Nature Methods: RNA foundation model (together with RhoFold)

    Jupyter Notebook 255 MIT 28 14 0 Updated Nov 30, 2024
  • RiboDiffusion Public

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

    Python 43 MIT 6 0 0 Updated Nov 17, 2024
  • RhoDesign Public

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

    Jupyter Notebook 34 MIT 3 1 0 Updated Nov 8, 2024
  • CasAINet Public

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

    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

    Python 102 BSD-3-Clause 6 4 0 Updated Aug 30, 2024
  • ifDEEPre Public

    large protein language-based deep learning enables interpretable and fast predictions of enzyme commission numbers

    Python 2 MIT 1 0 1 Updated Jul 24, 2024

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