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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 705 394

  2. finufft finufft Public

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

    C++ 390 97

  3. DeepFRI DeepFRI Public

    Deep functional residue identification

    Python 343 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 134 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 115 MIT 14 131 (1 issue needs help) 4 Updated Dec 24, 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++ 390 97 49 (3 issues need help) 3 Updated Dec 24, 2025
  • jaxmg Public

    jaxmg: A distributed linear solver in JAX with cuSolverMg

    flatironinstitute/jaxmg’s past year of commit activity
    Jupyter Notebook 15 Apache-2.0 1 0 0 Updated Dec 23, 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 4 Updated Dec 22, 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 19, 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 705 GPL-2.0 394 78 (1 issue needs help) 12 Updated Dec 18, 2025
  • stan-playground Public

    Run Stan models in the browser

    flatironinstitute/stan-playground’s past year of commit activity
    TypeScript 54 Apache-2.0 1 11 (2 issues need help) 1 Updated Dec 18, 2025
  • aLENS_analysis Public

    Postprocessing & analysis scripts for aLENS data

    flatironinstitute/aLENS_analysis’s past year of commit activity
    Jupyter Notebook 0 2 0 0 Updated Dec 18, 2025
  • figpack Public

    A Python package for creating shareable, interactive, browser-based visualizations

    flatironinstitute/figpack’s past year of commit activity
    TypeScript 15 Apache-2.0 0 3 0 Updated Dec 18, 2025
  • DeterminantRatioMatrix Public
    flatironinstitute/DeterminantRatioMatrix’s past year of commit activity
    Jupyter Notebook 2 1 3 0 Updated Dec 17, 2025
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