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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 645 372

  2. finufft finufft Public

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

    C++ 319 82

  3. DeepFRI DeepFRI Public

    Deep functional residue identification

    Python 314 81

  4. CaImAn-MATLAB CaImAn-MATLAB Public

    Complete Matlab pipeline for large scale calcium imaging data analysis

    MATLAB 252 148

  5. NoRMCorre NoRMCorre Public

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

    MATLAB 145 91

  6. deepblast deepblast Public

    Neural Networks for Protein Sequence Alignment

    Python 117 21

Repositories

Showing 10 of 187 repositories
  • nemos Public

    NEural MOdelS, a statistical modeling framework for neuroscience.

    flatironinstitute/nemos’s past year of commit activity
    Python 89 MIT 8 100 5 Updated Feb 18, 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++ 319 82 43 (3 issues need help) 8 Updated Feb 18, 2025
  • nixpack Public

    nix+spack = nixpack (spanix?)

    flatironinstitute/nixpack’s past year of commit activity
    Nix 45 MIT 4 1 4 Updated Feb 18, 2025
  • neurosift Public

    Browser-based NWB visualization and DANDI exploration

    flatironinstitute/neurosift’s past year of commit activity
    TypeScript 51 Apache-2.0 7 13 0 Updated Feb 18, 2025
  • stan-playground Public

    Run Stan models in the browser

    flatironinstitute/stan-playground’s past year of commit activity
    TypeScript 42 Apache-2.0 1 12 2 Updated Feb 14, 2025
  • simple_ans Public

    Simple ANS (Asymmetric Numeral Systems) implementation in Python/C++

    flatironinstitute/simple_ans’s past year of commit activity
    Python 2 Apache-2.0 2 0 1 Updated Feb 14, 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 Feb 14, 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 8 GPL-3.0 2 3 0 Updated Feb 13, 2025
  • sciware Public

    Learning materials for scientific software development

    flatironinstitute/sciware’s past year of commit activity
    HTML 83 38 2 0 Updated Feb 13, 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 6 MIT 0 18 1 Updated Feb 12, 2025
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