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  1. RNA-FM RNA-FM Public

    Nature Methods: RNA foundation model (together with RhoFold)

    Jupyter Notebook 250 28

  2. e2efold e2efold Public

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

    Python 112 19

  3. RhoFold RhoFold Public

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

    Python 107 13

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

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

    Python 101 6

  5. RiboDiffusion RiboDiffusion Public

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

    Python 40 6

  6. CLEAR CLEAR Public

    CLEAR: Self-supervised contrastive learning for integrative single-cell RNA-seq data analysis

    Python 33 9

Repositories

Showing 10 of 11 repositories
  • 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 107 Apache-2.0 13 3 0 Updated Dec 19, 2024
  • RNA-FM Public

    Nature Methods: RNA foundation model (together with RhoFold)

    Jupyter Notebook 250 MIT 28 13 0 Updated Nov 30, 2024
  • RiboDiffusion Public

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

    Python 40 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 32 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 101 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
  • e2efold Public

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

    Python 112 MIT 19 8 0 Updated Apr 7, 2024
  • E2Efold-3D Public

    End-to-End Deep Learning Method for accurate de novo RNA 3D Structure Prediction

    4 0 1 0 Updated Jan 4, 2024