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@neurobagel

Neurobagel

An ecosystem for distributed dataset harmonization and search.

👋 Welcome to Neurobagel! 🧠🥯

The goal of the Neurobagel project is to provide a way for researchers and other data users to define and find cohorts of individuals across datasets. Not all useful and important data can be openly shared or are allowed to be uploaded to remote servers. Our approach is to ask data providers to describe their data with metadata, so that we can let others find out about the data without having direct access to them.

We are building tools with the goal of making the annotation, integration, and searching of clinical neuroimaging data easier. This project is under active development, and we are excited to hear from you if it resonates with your needs, if you are interested in collaborating, or you have ideas for how Neurobagel could be useful.

The project originated from the ORIGAMI Lab with the Douglas Hospital and support from many other projects, including ReproNim and NeuroHub.

For more information, check out our:

Come say hello!

Contacts: Sebastian Urchs and JB Poline

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  1. api api Public

    Python 8 10

  2. query-tool query-tool Public

    User interface for searching across Neurobagel graph

    TypeScript 6 9

  3. bagel-cli bagel-cli Public

    Command line tool for Neurobagel data parsing and annotation

    Python 5 9

  4. documentation documentation Public

    The neurobagel documentation

    JavaScript 23 13

  5. federation-api federation-api Public

    REST API for query federation over multiple Neurobagel graph databases

    Python

  6. annotation-tool annotation-tool Public

    TypeScript 4 13

Repositories

Showing 10 of 43 repositories
  • bagel-cli Public

    Command line tool for Neurobagel data parsing and annotation

    neurobagel/bagel-cli's past year of commit activity
    Python 5 MIT 9 36 (1 issue needs help) 2 Updated Nov 10, 2026
  • testplace Public

    rehearsal repo for repo migration

    neurobagel/testplace's past year of commit activity
    TypeScript 0 MIT 0 0 4 Updated Nov 10, 2026
  • query-tool Public

    User interface for searching across Neurobagel graph

    neurobagel/query-tool's past year of commit activity
    TypeScript 6 MIT 9 45 (1 issue needs help) 1 Updated Nov 10, 2026
  • neurobagel/annotation-tool's past year of commit activity
    TypeScript 4 MIT 13 43 4 Updated Nov 10, 2026
  • federation-api Public

    REST API for query federation over multiple Neurobagel graph databases

    neurobagel/federation-api's past year of commit activity
    Python 0 MIT 0 12 1 Updated Nov 10, 2026
  • api Public
    neurobagel/api's past year of commit activity
    Python 8 MIT 10 20 1 Updated Nov 10, 2026
  • recipes Public

    Configuration files for a Neurobagel deployment.

    neurobagel/recipes's past year of commit activity
    Python 2 MIT 3 24 1 Updated Nov 10, 2026
  • neurobagel_examples Public

    Example files using the neurobagel schema

    neurobagel/neurobagel_examples's past year of commit activity
    0 MIT 0 0 0 Updated Nov 10, 2026
  • atlas Public
    neurobagel/atlas's past year of commit activity
    TypeScript 0 MIT 0 7 9 Updated Nov 9, 2026
  • neurobagel/openneuro-annotations's past year of commit activity
    1 MIT 0 5 0 Updated Nov 9, 2026

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