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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 672 386

  2. finufft finufft Public

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

    C++ 362 91

  3. DeepFRI DeepFRI Public

    Deep functional residue identification

    Python 325 85

  4. CaImAn-MATLAB CaImAn-MATLAB Public

    Complete Matlab pipeline for large scale calcium imaging data analysis

    MATLAB 257 149

  5. NoRMCorre NoRMCorre Public

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

    MATLAB 150 95

  6. deepblast deepblast Public

    Neural Networks for Protein Sequence Alignment

    Python 124 22

Repositories

Showing 10 of 208 repositories
  • clair Public

    Clair (Clang Introspection and Reflection) tools. A set of clang tools developed for Flatiron/CCQ

    flatironinstitute/clair’s past year of commit activity
    C++ 16 Apache-2.0 2 1 0 Updated Jul 21, 2025
  • c2py Public

    Clair/c2py low level library

    flatironinstitute/c2py’s past year of commit activity
    C++ 1 Apache-2.0 1 0 0 Updated Jul 22, 2025
  • nemos Public

    NEural MOdelS, a statistical modeling framework for neuroscience.

    flatironinstitute/nemos’s past year of commit activity
    Python 100 MIT 10 121 (3 issues need help) 6 Updated Jul 21, 2025
  • walnuts Public

    Within-orbit Adaptive Leapfrog No-U-Turn Sampler

    flatironinstitute/walnuts’s past year of commit activity
    C++ 5 MIT 1 6 0 Updated Jul 21, 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 43 Apache-2.0 5 4 2 Updated Jul 21, 2025
  • nixpack Public

    nix+spack = nixpack (spanix?)

    flatironinstitute/nixpack’s past year of commit activity
    Nix 46 MIT 4 1 4 Updated Jul 19, 2025
  • cryoSBI Public
    flatironinstitute/cryoSBI’s past year of commit activity
    Python 11 1 15 2 Updated Jul 18, 2025
  • vintch-v1-model Public

    Implementation of V1 model from Vintch et al., 2015

    flatironinstitute/vintch-v1-model’s past year of commit activity
    0 MIT 0 0 1 Updated Jul 17, 2025
  • 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 672 GPL-2.0 386 71 (1 issue needs help) 11 Updated Jul 17, 2025
  • neurosift Public

    Browser-based NWB visualization and DANDI exploration

    flatironinstitute/neurosift’s past year of commit activity
    TypeScript 60 Apache-2.0 12 35 1 Updated Jul 15, 2025
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