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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 686 387

  2. finufft finufft Public

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

    C++ 371 93

  3. DeepFRI DeepFRI Public

    Deep functional residue identification

    Python 331 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 97

  6. deepblast deepblast Public

    Neural Networks for Protein Sequence Alignment

    Python 127 22

Repositories

Showing 10 of 212 repositories
  • cryoSBI Public
    flatironinstitute/cryoSBI’s past year of commit activity
    Python 12 2 15 2 Updated Sep 22, 2025
  • stan-playground Public

    Run Stan models in the browser

    flatironinstitute/stan-playground’s past year of commit activity
    TypeScript 48 Apache-2.0 1 11 2 Updated Sep 20, 2025
  • nemos Public

    NEural MOdelS, a statistical modeling framework for neuroscience.

    flatironinstitute/nemos’s past year of commit activity
    Python 104 MIT 11 123 (2 issues need help) 2 Updated Sep 19, 2025
  • figpack Public

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

    flatironinstitute/figpack’s past year of commit activity
    TypeScript 6 Apache-2.0 0 3 0 Updated Sep 19, 2025
  • neurosift Public

    Browser-based NWB visualization and DANDI exploration

    flatironinstitute/neurosift’s past year of commit activity
    TypeScript 60 Apache-2.0 13 43 1 Updated Sep 18, 2025
  • adapol Public

    Adaptive Pole Fitting for Quantum Many-Body Physics

    flatironinstitute/adapol’s past year of commit activity
    Jupyter Notebook 11 GPL-3.0 3 0 0 Updated Sep 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 686 GPL-2.0 387 72 (1 issue needs help) 11 Updated Sep 17, 2025
  • walnuts Public

    Within-orbit Adaptive Leapfrog No-U-Turn Sampler

    flatironinstitute/walnuts’s past year of commit activity
    C++ 17 MIT 0 7 3 Updated Sep 15, 2025
  • ManifoldEM Public

    Python package for determination of conformational continua of macromolecules from single-particle cryo-EM data

    flatironinstitute/ManifoldEM’s past year of commit activity
    Python 13 GPL-3.0 2 5 0 Updated Sep 15, 2025
  • fi-slurm-utils Public

    Command-line utilities for Slurm HPC clusters

    flatironinstitute/fi-slurm-utils’s past year of commit activity
    Rust 3 Apache-2.0 0 1 0 Updated Sep 12, 2025
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