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---
license: cc-by-4.0
thumbnail: "https://github.com/user-attachments/assets/8ae905f3-6884-45cb-bd50-0838a5c8e3db"
---


<!DOCTYPE html>
<html lang="en">
<head>
    <meta charset="UTF-8">
    <meta name="viewport" content="width=device-width, initial-scale=1.0">
    <title>Data Card</title>
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</head>
<body>
    <div class="container">
        <div class="header">
            <h1>Caduceus Project Dataset</h1>
        </div>
        <div class="info">
            <img src="https://cdn-uploads.huggingface.co/production/uploads/6589d7e6586088fd2784a12c/SdR5VbJNxeHl3bG0yGSba.png" alt="Caduceus Project" style="border-radius: 10px;">
            <p><strong>Creator:</strong> <a href="https://github.com/Kquant03" target="_blank">Kquant03</a></p>
            <div>
                <p><strong>About the Dataset:</strong> The Caduceus Project Dataset is a curated collection of scientific and medical protocols sourced from <a href="https://github.com/protocolsio/protocols" target="_blank">protocols.io</a> and converted from PDF to markdown format. This dataset aims to enhance the accessibility and usability of complex scientific and medical information by providing a structured and easily readable version of the protocols. You can find the repository for the pipeline <a href="https://github.com/Kquant03/caduceus" target="_blank">here</a>.</p>
                <p><strong>Source Data:</strong></p>
                <ul>
                    <li>Protocols from <a href="https://github.com/protocolsio/protocols" target="_blank">protocols.io</a></li>
                </ul>
                <p><strong>Key Features:</strong></p>
                <ul>
                    <li>Carefully selected high-quality protocols</li>
                    <li>Converted from PDF to markdown format for improved readability</li>
                    <li>Structured organization with individual markdown files and a JSONL file</li>
                    <li>Quality assessment based on word count and measurements ratio</li>
                    <li>Density maps visualizing word counts and measurements ratios</li>
                </ul>
                <p><strong>Dataset Structure:</strong></p>
                <ul>
                    <li><code>original_pdfs/</code>: Contains the original PDF files of the selected protocols.</li>
                    <li><code>markdown_files/</code>: Contains the individual markdown files converted from the selected PDF files.</li>
                    <li><code>TXT.jsonl/</code>: Contains the JSONL files with the text versions of the PDFs and the converted markdown content of all the selected protocols.</li>
                    <li><code>Base64.jsonl/</code>: Contains the JSONL files with the Base64 versions of the PDFs and the converted markdown content of all the selected protocols. (for potential vision training)</li>
                </ul>
                <p><strong>License:</strong> The Caduceus Project Dataset is released under the <a href="https://creativecommons.org/licenses/by/4.0/" target="_blank">Creative Commons Attribution 4.0 International (CC BY 4.0) License</a>.</p>
                <p><strong>Acknowledgments:</strong> We would like to express our gratitude to the contributors of <a href="https://github.com/protocolsio/protocols" target="_blank">protocols.io</a> for providing the open-source repository of scientific and medical protocols that served as the foundation for this dataset.</p>
            </div>
        </div>
    </div>
</body>
</html>