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  1. PyDESeq2 PyDESeq2 Public

    A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.

    Python 708 79

  2. FLamby FLamby Public

    Cross-silo Federated Learning playground in Python. Discover 7 real-world federated datasets to test your new FL strategies and try to beat the leaderboard.

    Python 222 25

  3. HistoSSLscaling HistoSSLscaling Public

    Code associated to the publication: Scaling self-supervised learning for histopathology with masked image modeling, A. Filiot et al., MedRxiv (2023). We publicly release Phikon 🚀

    Jupyter Notebook 164 14

  4. HE2RNA_code HE2RNA_code Public archive

    Train a model to predict gene expression from histology slides.

    Python 110 41

  5. GrAIdient GrAIdient Public

    GrAIdient is a deep learning framework that aims at challenging the way we train and run models.

    Swift 79 2

  6. histoplus histoplus Public

    Python 55 3

Repositories

Showing 10 of 68 repositories
  • PyDESeq2 Public

    A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.

    owkin/PyDESeq2’s past year of commit activity
    Python 708 MIT 79 39 7 Updated Dec 9, 2025
  • owkin/fedpydeseq2-datasets’s past year of commit activity
    Python 0 MIT 0 0 1 Updated Dec 8, 2025
  • fedpydeseq2 Public

    A federated implementation of PyDESeq2, based on Substra.

    owkin/fedpydeseq2’s past year of commit activity
    Python 15 MIT 0 0 1 Updated Dec 8, 2025
  • plism-benchmark Public

    Official repository for PLISM robustness benchmark of pathology foundation models (MICCAI 2025)

    owkin/plism-benchmark’s past year of commit activity
    Python 15 2 0 0 Updated Nov 30, 2025
  • openslide Public Forked from openslide/openslide

    C library for reading virtual slide images

    owkin/openslide’s past year of commit activity
    C 1 LGPL-2.1 272 0 0 Updated Nov 28, 2025
  • miso_code Public
    owkin/miso_code’s past year of commit activity
    Jupyter Notebook 3 0 0 0 Updated Nov 26, 2025
  • docker-dependency-updater Public

    Checks system dependencies and update them if required

    owkin/docker-dependency-updater’s past year of commit activity
    TypeScript 1 Apache-2.0 0 0 6 Updated Nov 24, 2025
  • owkin/fedpydeseq2-paper-experiments’s past year of commit activity
    Python 0 MIT 0 0 1 Updated Nov 17, 2025
  • SpaMIL Public

    Multiple Instance Learning for Spatial Transcriptomics

    owkin/SpaMIL’s past year of commit activity
    Python 0 0 0 0 Updated Nov 3, 2025
  • leap Public

    Predicting gene essentiality and drug response from perturbation screens in preclinical cancer models. Repository for the paper https://arxiv.org/abs/2502.15646

    owkin/leap’s past year of commit activity
    Python 2 0 0 0 Updated Oct 30, 2025

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