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  1. CaImAn CaImAn Public

    Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.

    Python 664 382

  2. finufft finufft Public

    Non-uniform fast Fourier transform library of types 1,2,3 in dimensions 1,2,3

    C++ 351 88

  3. DeepFRI DeepFRI Public

    Deep functional residue identification

    Python 322 85

  4. CaImAn-MATLAB CaImAn-MATLAB Public

    Complete Matlab pipeline for large scale calcium imaging data analysis

    MATLAB 256 148

  5. NoRMCorre NoRMCorre Public

    Matlab routines for online non-rigid motion correction of calcium imaging data

    MATLAB 151 95

  6. deepblast deepblast Public

    Neural Networks for Protein Sequence Alignment

    Python 121 22

Repositories

Showing 10 of 198 repositories
  • CaImAn Public

    Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.

    flatironinstitute/CaImAn’s past year of commit activity
    Python 664 GPL-2.0 382 82 (1 issue needs help) 12 Updated Jun 3, 2025
  • nemos Public

    NEural MOdelS, a statistical modeling framework for neuroscience.

    flatironinstitute/nemos’s past year of commit activity
    Python 98 MIT 10 115 (3 issues need help) 5 Updated Jun 3, 2025
  • sciware Public

    Learning materials for scientific software development

    flatironinstitute/sciware’s past year of commit activity
    HTML 84 38 2 0 Updated Jun 2, 2025
  • Disk-hospital Public

    This is an effort focused on automating disk problem resolution

    flatironinstitute/Disk-hospital’s past year of commit activity
    Python 0 0 0 0 Updated Jun 2, 2025
  • jax-finufft Public

    JAX bindings to the Flatiron Institute Non-uniform Fast Fourier Transform (FINUFFT) library

    flatironinstitute/jax-finufft’s past year of commit activity
    Python 95 Apache-2.0 3 7 (1 issue needs help) 0 Updated Jun 2, 2025
  • nifty-ls Public

    A fast Lomb-Scargle periodogram. It's nifty, and uses a NUFFT!

    flatironinstitute/nifty-ls’s past year of commit activity
    Python 41 Apache-2.0 3 4 0 Updated Jun 2, 2025
  • disBatch Public

    Dynamic dispatch of a list of command-line tasks, locally or on a cluster. Supports retrying failed tasks, and adding/removing compute resources on-the-fly.

    flatironinstitute/disBatch’s past year of commit activity
    Python 45 Apache-2.0 9 7 0 Updated Jun 2, 2025
  • scc-vscode-jupyterhub Public

    VS Code server launcher for FI JupyterHub

    flatironinstitute/scc-vscode-jupyterhub’s past year of commit activity
    HTML 1 Apache-2.0 0 0 0 Updated Jun 3, 2025
  • cryoSBI Public
    flatironinstitute/cryoSBI’s past year of commit activity
    Python 11 1 15 2 Updated Jun 2, 2025
  • Cryo-EM-Heterogeneity-Challenge-1 Public

    The Inaugural Flatiron Institute Cryo-EM Heterogeneity Community Challenge

    flatironinstitute/Cryo-EM-Heterogeneity-Challenge-1’s past year of commit activity
    Jupyter Notebook 8 MIT 1 34 6 Updated Jun 2, 2025
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