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  1. Home
  3. Geranium: Multimodal Retrieval Of Genomics Data Visualizations.
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  3. Geranium: Multimodal Retrieval Of Genomics Data Visualizations.

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Pattern-based Search of Epigenomic Data Using GeNemo
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Geranium: Multimodal Retrieval of Genomics Data Visualizations.

Huyen N Nguyen, Sehi L'Yi, Thomas C Smits

    IEEE Transactions on Visualization and Computer Graphics
    |April 13, 2026

    View abstract on PubMed

    Summary
    This summary is machine-generated.

    Researchers can now find and adapt genomics visualizations more easily using Geranium, a new retrieval system. This tool streamlines the creation of complex data graphics for genomics research.

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    Navigating MARRVEL, a Web-Based Tool that Integrates Human Genomics and Model Organism Genetics Information
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    Area of Science:

    • Genomics
    • Data Visualization
    • Bioinformatics

    Background:

    • Interpreting genomics data requires effective visualization, but finding reusable examples is challenging.
    • Current tools lack robust search capabilities for the extensive collection of genomics visualizations.
    • This inefficiency hinders the creation of new visualizations, increasing authoring time.

    Purpose of the Study:

    • To introduce Geranium, a novel data visualization retrieval system designed for genomics.
    • To enhance the search and authoring process for genomics visualizations.
    • To provide researchers with adaptable visualization templates.

    Main Methods:

    • Geranium employs multimodal retrieval, accepting image, text, or grammar-based queries.
    • It integrates grammar-based, multimodal, and text embeddings for comprehensive knowledge representation.
  • Each visualization is represented multimodally, including Gosling specifications, renderings, and descriptions.

    • Main Results:

    • The system supports multimodal retrieval for efficient searching of genomics visualizations.
    • Retrieved examples act as templates, simplifying the adaptation and authoring of new visualizations.
    • A collection of 3,200 visualizations across 50 categories is available, supporting diverse genomics applications.

    Conclusions:

    • Geranium significantly improves the efficiency and accessibility of genomics data visualization.
    • The multimodal retrieval and template-based authoring streamline the visualization workflow for researchers.
    • This system facilitates the exploration of complex genomics data, from single-cell epigenomics to structural variations.