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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 716 393

  2. finufft finufft Public

    Non-uniform fast Fourier transform library of types 1,2,3 in dimensions 1,2,3 on the CPU or GPU

    C++ 398 97

  3. DeepFRI DeepFRI Public

    Deep functional residue identification

    Python 348 88

  4. CaImAn-MATLAB CaImAn-MATLAB Public

    Complete Matlab pipeline for large scale calcium imaging data analysis

    MATLAB 258 152

  5. NoRMCorre NoRMCorre Public

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

    MATLAB 153 97

  6. FMM3D FMM3D Public

    Flatiron Institute Fast Multipole Libraries --- This codebase is a set of libraries to compute N-body interactions governed by the Laplace and Helmholtz equations, to a specified precision, in thre…

    Fortran 139 52

Repositories

Showing 10 of 222 repositories
  • nemos Public

    NEural MOdelS, a statistical modeling framework for neuroscience.

    flatironinstitute/nemos’s past year of commit activity
    Python 122 MIT 17 127 (1 issue needs help) 10 Updated Feb 24, 2026
  • finufft Public

    Non-uniform fast Fourier transform library of types 1,2,3 in dimensions 1,2,3 on the CPU or GPU

    flatironinstitute/finufft’s past year of commit activity
    C++ 398 97 41 (3 issues need help) 8 Updated Feb 24, 2026
  • FMM3D Public

    Flatiron Institute Fast Multipole Libraries --- This codebase is a set of libraries to compute N-body interactions governed by the Laplace and Helmholtz equations, to a specified precision, in three dimensions, on a multi-core shared-memory machine.

    flatironinstitute/FMM3D’s past year of commit activity
    Fortran 139 52 23 1 Updated Feb 24, 2026
  • psyphy Public

    Psychophysical modeling and adaptive trial placement

    flatironinstitute/psyphy’s past year of commit activity
    Python 5 2 25 (2 issues need help) 1 Updated Feb 24, 2026
  • stan-playground Public

    Run Stan models in the browser

    flatironinstitute/stan-playground’s past year of commit activity
    TypeScript 55 Apache-2.0 1 11 (2 issues need help) 1 Updated Feb 23, 2026
  • adapol Public

    Adaptive Pole Fitting for Quantum Many-Body Physics

    flatironinstitute/adapol’s past year of commit activity
    Jupyter Notebook 12 GPL-3.0 4 0 0 Updated Feb 20, 2026
  • figpack Public

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

    flatironinstitute/figpack’s past year of commit activity
    TypeScript 16 Apache-2.0 1 4 0 Updated Feb 19, 2026
  • 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 716 GPL-2.0 393 83 (1 issue needs help) 15 Updated Feb 19, 2026
  • neuroRSE Public

    Website for CCN's neuroRSE group

    flatironinstitute/neuroRSE’s past year of commit activity
    CSS 1 MIT 0 0 0 Updated Feb 13, 2026
  • lineage_viewer Public

    Graphical interface for editing a lineage and viewing related microscopy images

    flatironinstitute/lineage_viewer’s past year of commit activity
    Python 1 BSD-3-Clause 1 7 0 Updated Feb 13, 2026
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