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@lincbrain

LINC: Large-scale Imaging of Neural Circuits

👋 Welcome to LINC BRAIN!

The center for Large-scale Imaging of Neural Circuits (LINC) (PIs: Haber, Hillman, Yendiki) is funded by the NIH BRAIN Initiative CONNECTS program. Its goal is to develop novel technologies for imaging brain connections down to the microscopic scale, and deploy these technologies to image cortico-subcortical projections that are relevant to deep brain stimulation for motor and psychiatric disorders.

The LINC project is a collaboration between 8 institutions: Brigham and Women’s Hospital (PI: Fox), Columbia University (PI: Hillman), Harvard University (PI: Lichtman), Massachusetts General Hospital (PI: Yendiki), Massachusetts Institute of Technology (PI: Ghosh), University College London (PI: Walsh, co-PI: Lee), University of Rochester (PI: Haber), and Weill Cornell Medicine (PI: Wu).

In this GitHub organization are the source code, configuration, and documentation for the LINC Cloud Platform, which is used by the LINC team to share data and run analysis. As analysis methods become available they will be published here.

Quick Links

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  1. linc-convert linc-convert Public

    Data conversion scripts for the LINC project

    Python 1 3

  2. linc-pipelines linc-pipelines Public

    Top-level image processing streams for LINC data

    Shell 3

  3. Fibers.jl Fibers.jl Public

    Julia package for reconstructing fiber trajectories from multi-scale, multi-modal imaging data

    Julia 21 4

  4. linc-archive linc-archive Public

    Forked from dandi/dandi-archive

    LINC API server and Web app

    Python

  5. webknossos webknossos Public

    Forked from scalableminds/webknossos

    Visualize, share and annotate your large 3D images online

    TypeScript

  6. linc-archive-infrastructure linc-archive-infrastructure Public

    Forked from dandi/dandi-infrastructure

    LINC Archive Infrastructure

    HCL

Repositories

Showing 10 of 32 repositories
  • linc-upptime Public

    Status for all LINC services

    lincbrain/linc-upptime’s past year of commit activity
    Markdown 0 MIT 1 0 0 Updated Mar 3, 2026
  • linc-dashboard Public

    LINC Dashboard

    lincbrain/linc-dashboard’s past year of commit activity
    Python 0 Apache-2.0 1 3 1 Updated Mar 2, 2026
  • linc-gallery Public

    LINC Gallery

    lincbrain/linc-gallery’s past year of commit activity
    JavaScript 0 1 1 1 Updated Feb 28, 2026
  • trk_to_annotation Public

    python script to convert trk files to precomputed annoation directory

    lincbrain/trk_to_annotation’s past year of commit activity
    Python 0 Apache-2.0 0 1 0 Updated Feb 26, 2026
  • linc-convert Public

    Data conversion scripts for the LINC project

    lincbrain/linc-convert’s past year of commit activity
    Python 1 Apache-2.0 3 24 5 Updated Feb 23, 2026
  • linc-docs Public

    LINC Documentation

    lincbrain/linc-docs’s past year of commit activity
    1 5 7 1 Updated Jan 29, 2026
  • fiber-bundle-segmentation Public

    Code for the paper "Fully Automated Segmentation of Fiber Bundles in Anatomic Tracing Data"

    lincbrain/fiber-bundle-segmentation’s past year of commit activity
    Python 1 MIT 2 0 0 Updated Oct 9, 2025
  • linc-archive Public Forked from dandi/dandi-archive

    LINC API server and Web app

    lincbrain/linc-archive’s past year of commit activity
    Python 0 18 11 0 Updated Jul 25, 2025
  • sandbox-dandi-archive Public archive Forked from dandi/dandi-archive

    DANDI API server and Web app

    lincbrain/sandbox-dandi-archive’s past year of commit activity
    Python 0 18 0 0 Updated Jul 23, 2025
  • neuroglancer Public Forked from google/neuroglancer

    WebGL-based viewer for volumetric data

    lincbrain/neuroglancer’s past year of commit activity
    TypeScript 1 Apache-2.0 360 1 8 Updated Jun 3, 2025

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