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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 658 379

  2. finufft finufft Public

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

    C++ 335 84

  3. DeepFRI DeepFRI Public

    Deep functional residue identification

    Python 318 83

  4. CaImAn-MATLAB CaImAn-MATLAB Public

    Complete Matlab pipeline for large scale calcium imaging data analysis

    MATLAB 255 148

  5. NoRMCorre NoRMCorre Public

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

    MATLAB 150 95

  6. deepblast deepblast Public

    Neural Networks for Protein Sequence Alignment

    Python 120 22

Repositories

Showing 10 of 194 repositories
  • blastoSPIM_web Public

    Generate a web site supporting the Blastospim mouse embryo research project.

    flatironinstitute/blastoSPIM_web’s past year of commit activity
    JavaScript 0 BSD-2-Clause 0 12 0 Updated Apr 18, 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++ 16 Apache-2.0 2 1 0 Updated Apr 18, 2025
  • c2py Public

    Clair/c2py low level library

    flatironinstitute/c2py’s past year of commit activity
    C++ 1 Apache-2.0 1 0 0 Updated Apr 18, 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 658 GPL-2.0 379 87 (1 issue needs help) 11 Updated Apr 17, 2025
  • nemos Public

    NEural MOdelS, a statistical modeling framework for neuroscience.

    flatironinstitute/nemos’s past year of commit activity
    Python 95 MIT 9 113 (3 issues need help) 3 Updated Apr 17, 2025
  • AnaVox Public
    flatironinstitute/AnaVox’s past year of commit activity
    Jupyter Notebook 4 GPL-3.0 1 0 0 Updated Apr 17, 2025
  • 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 Apr 16, 2025
  • PyBenchFramework Public

    BenchmarkToolkit is a Python library designed to simplify and streamline benchmarking tasks. This library provides a high-level abstraction over various benchmarking functions, allowing developers to easily perform performance testing and analysis with minimal setup.

    flatironinstitute/PyBenchFramework’s past year of commit activity
    Python 0 1 0 0 Updated Apr 16, 2025
  • nixpack Public

    nix+spack = nixpack (spanix?)

    flatironinstitute/nixpack’s past year of commit activity
    Nix 46 MIT 4 1 4 Updated Apr 15, 2025
  • Cryo-EM-Heterogeneity-Challenge-1 Public

    The Inaugural Flatiron Institute Cryo-EM Heterogeneity Community Challenge

    flatironinstitute/Cryo-EM-Heterogeneity-Challenge-1’s past year of commit activity
    Jupyter Notebook 8 MIT 0 23 4 Updated Apr 15, 2025
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