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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 680 386

  2. finufft finufft Public

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

    C++ 366 93

  3. DeepFRI DeepFRI Public

    Deep functional residue identification

    Python 329 85

  4. CaImAn-MATLAB CaImAn-MATLAB Public

    Complete Matlab pipeline for large scale calcium imaging data analysis

    MATLAB 258 149

  5. NoRMCorre NoRMCorre Public

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

    MATLAB 152 96

  6. deepblast deepblast Public

    Neural Networks for Protein Sequence Alignment

    Python 124 22

Repositories

Showing 10 of 209 repositories
  • walnuts Public

    Within-orbit Adaptive Leapfrog No-U-Turn Sampler

    flatironinstitute/walnuts’s past year of commit activity
    C++ 10 MIT 0 7 3 Updated Aug 15, 2025
  • nemos Public

    NEural MOdelS, a statistical modeling framework for neuroscience.

    flatironinstitute/nemos’s past year of commit activity
    Python 101 MIT 11 121 (3 issues need help) 3 Updated Aug 14, 2025
  • neurosift Public

    Browser-based NWB visualization and DANDI exploration

    flatironinstitute/neurosift’s past year of commit activity
    TypeScript 60 Apache-2.0 13 42 3 Updated Aug 13, 2025
  • finufft Public

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

    flatironinstitute/finufft’s past year of commit activity
    C++ 366 93 44 (3 issues need help) 9 Updated Aug 13, 2025
  • cryoSBI Public
    flatironinstitute/cryoSBI’s past year of commit activity
    Python 12 1 15 2 Updated Aug 13, 2025
  • pytorch-finufft Public

    Pytorch wrappers for the FINUFFT library

    flatironinstitute/pytorch-finufft’s past year of commit activity
    Python 14 MIT 0 6 2 Updated Aug 12, 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 680 GPL-2.0 386 71 (1 issue needs help) 12 Updated Aug 11, 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 100 Apache-2.0 4 8 1 Updated Aug 11, 2025
  • septin_AH_analysis Public

    Analysis script for septin AH paper.

    flatironinstitute/septin_AH_analysis’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Aug 11, 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 0 Updated Aug 9, 2025
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