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Giotto Suite Documentation

repository·suite·Indexed 18 days ago

https://github.com/giotto-suite/giotto

An R-based ecosystem for the analysis and visualization of spatial multi-omics data. This technology-agnostic framework supports diverse spatial datasets across multiple resolutions and dimensions, including in situ hybridization (seqFISH+, merFISH, osmFISH, CosMx), sequencing (Slide-seq, Visium, STARmap, Seq-Scope, Stereo-Seq), and imaging-based multiplexing/proteomics (CyCIF, MIBI, CODEX).

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What's inside Giotto Suite

  1. Overview of Giotto Suite

    suite

    Giotto Suite is an ecosystem designed to process, analyze, and visualize spatial multi-omics data at all scales and multiple resolutions.

    It is technology-agnostic and supports a wide range of spatial technologies, including:

    • In situ hybridization: seqFISH+, merFISH, osmFISH, CosMx
    • Sequencing: Slide-seq, Visium, STARmap, Seq-Scope, Stereo-Seq
    • Imaging-based multiplexing/proteomics: CyCIF, MIBI, CODEX

    The framework handles varying resolutions (subcellular to multi-cell), spatial dimensions (2D and 3D), molecular modalities (protein, RNA, DNA), and high-throughput datasets.