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@MouseLand

MouseLand

collaborative analysis of neural recordings

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  1. cellpose cellpose Public

    a generalist algorithm for cellular segmentation with human-in-the-loop capabilities

    Jupyter Notebook 1.6k 441

  2. Kilosort Kilosort Public

    Fast spike sorting with drift correction

    Python 514 260

  3. suite2p suite2p Public

    cell detection in calcium imaging recordings

    Jupyter Notebook 376 251

  4. rastermap rastermap Public

    a visualization method for neural data

    Python 214 49

  5. facemap facemap Public

    Framework for predicting neural activity from mouse orofacial movements tracked using a pose estimation model. Package also includes singular value decomposition (SVD) of behavioral videos.

    Python 164 63

  6. stringer-pachitariu-et-al-2018b stringer-pachitariu-et-al-2018b Public

    Responses of 10,000 neurons to 2,800 natural images

    MATLAB 68 21

Repositories

Showing 10 of 21 repositories
  • Kilosort Public

    Fast spike sorting with drift correction

    Python 514 GPL-3.0 260 35 1 Updated Mar 26, 2025
  • cellpose Public

    a generalist algorithm for cellular segmentation with human-in-the-loop capabilities

    Jupyter Notebook 1,552 BSD-3-Clause 441 45 (2 issues need help) 15 Updated Mar 19, 2025
  • critical_init Public

    code for Pachitariu et al 2025

    Jupyter Notebook 0 GPL-3.0 0 0 0 Updated Feb 28, 2025
  • MouseLand.github.io Public

    website for Pachitariu-Stringer lab

    CSS 0 0 0 0 Updated Feb 27, 2025
  • suite2p Public

    cell detection in calcium imaging recordings

    Jupyter Notebook 376 GPL-3.0 251 111 (1 issue needs help) 12 Updated Jan 2, 2025
  • facemap Public

    Framework for predicting neural activity from mouse orofacial movements tracked using a pose estimation model. Package also includes singular value decomposition (SVD) of behavioral videos.

    Python 164 GPL-3.0 63 11 1 Updated Dec 5, 2024
  • cellpose-napari Public

    napari plugin for cellpose (see www.cellpose.org) - an anatomical segmentation tool

    Python 52 BSD-3-Clause 25 10 2 Updated Oct 27, 2024
  • rastermap Public

    a visualization method for neural data

    Python 214 GPL-3.0 49 8 0 Updated Oct 19, 2024
  • Jupyter Notebook 3 GPL-3.0 1 0 0 Updated Aug 27, 2024
  • stringer-pachitariu-et-al-2018a Public

    Recordings of 10k neurons during spontaneous behaviors

    MATLAB 50 15 2 2 Updated Mar 22, 2024