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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 701 391

  2. finufft finufft Public

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

    C++ 386 96

  3. DeepFRI DeepFRI Public

    Deep functional residue identification

    Python 341 86

  4. CaImAn-MATLAB CaImAn-MATLAB Public

    Complete Matlab pipeline for large scale calcium imaging data analysis

    MATLAB 259 150

  5. NoRMCorre NoRMCorre Public

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

    MATLAB 153 97

  6. deepblast deepblast Public

    Neural Networks for Protein Sequence Alignment

    Python 133 23

Repositories

Showing 10 of 218 repositories
  • nemos Public

    NEural MOdelS, a statistical modeling framework for neuroscience.

    flatironinstitute/nemos’s past year of commit activity
    Python 111 MIT 13 129 (1 issue needs help) 5 Updated Dec 10, 2025
  • jaxmg Public

    jaxmg: A distributed linear solver in JAX with cuSolverMg

    flatironinstitute/jaxmg’s past year of commit activity
    Jupyter Notebook 13 Apache-2.0 1 0 1 Updated Dec 10, 2025
  • spack-packages Public Forked from spack/spack-packages

    Spack's community package recipes

    flatironinstitute/spack-packages’s past year of commit activity
    Python 0 Apache-2.0 476 0 0 Updated Dec 10, 2025
  • walnuts Public

    Within-orbit Adaptive Leapfrog No-U-Turn Sampler

    flatironinstitute/walnuts’s past year of commit activity
    C++ 29 MIT 1 9 (1 issue needs help) 2 Updated Dec 10, 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++ 386 96 49 (3 issues need help) 5 Updated Dec 10, 2025
  • dmk Public

    A Dual-space Multilevel Kernel-splitting (DMK) Framework for Discrete and Continuous Convolution

    flatironinstitute/dmk’s past year of commit activity
    C++ 14 4 12 (1 issue needs help) 1 Updated Dec 10, 2025
  • masala_public Public

    The public repository for the Core library of the Masala software suite. Masala is a set of free and open-source tools for biomolecular modelling, with a plugin-based infrastructure that makes it easy to extend other software.

    flatironinstitute/masala_public’s past year of commit activity
    C++ 8 AGPL-3.0 1 0 0 Updated Dec 10, 2025
  • spack Public Forked from spack/spack

    A flexible package manager that supports multiple versions, configurations, platforms, and compilers.

    flatironinstitute/spack’s past year of commit activity
    Python 2 2,463 0 14 Updated Dec 9, 2025
  • 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++ 18 Apache-2.0 3 3 2 Updated Dec 9, 2025
  • stan-playground Public

    Run Stan models in the browser

    flatironinstitute/stan-playground’s past year of commit activity
    TypeScript 53 Apache-2.0 1 11 (2 issues need help) 2 Updated Dec 9, 2025
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