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@prism-oncology

PRISM Institute

National PRecISion Medicine Center in Oncology

👋 Welcome to the PRISM Institute!

The PRISM Institute is a French interdisciplinary institute for precision oncology, established as a modern consortium at the interface of clinical medicine, mathematical modeling, and computational science.

PRISM is an initiative of Gustave Roussy, CentraleSupélec, Université Paris-Saclay, Inserm, and UNICANCER.

Our research combines 🧬 multi-omics profiling, 🔬 computational pathology, and 🤖 clinical AI to decode tumor heterogeneity and support personalized treatment decisions. We develop open-source tools and models that span the full translational arc, from raw molecular data to clinical decision support.

This GitHub organization hosts the software, datasets, and reproducible pipelines associated with our publications and ongoing projects. We are committed to open and reproducible science 🌍. Contributions, issues, and collaborations are welcome — feel free to open an issue or reach out.

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  1. sopa sopa Public

    Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoCycler / MACSima / etc)

    Python 275 49

  2. novae novae Public

    Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many other features.

    Python 129 12

  3. scyan scyan Public

    Biology-driven deep generative model for cell-type annotation in cytometry. Scyan is an interpretable model that also corrects batch-effect and can be used for debarcoding or population discovery.

    Python 43 2

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