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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 647 373

  2. finufft finufft Public

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

    C++ 323 83

  3. DeepFRI DeepFRI Public

    Deep functional residue identification

    Python 315 82

  4. CaImAn-MATLAB CaImAn-MATLAB Public

    Complete Matlab pipeline for large scale calcium imaging data analysis

    MATLAB 254 148

  5. NoRMCorre NoRMCorre Public

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

    MATLAB 147 92

  6. deepblast deepblast Public

    Neural Networks for Protein Sequence Alignment

    Python 119 21

Repositories

Showing 10 of 187 repositories
  • cryosvd Public
    flatironinstitute/cryosvd’s past year of commit activity
    Jupyter Notebook 4 GPL-3.0 1 0 0 Updated Mar 3, 2025
  • nemos Public

    NEural MOdelS, a statistical modeling framework for neuroscience.

    flatironinstitute/nemos’s past year of commit activity
    Python 91 MIT 8 103 (1 issue needs help) 3 Updated Mar 3, 2025
  • spack Public Forked from spack/spack

    A flexible package manager that supports multiple versions, configurations, platforms, and compilers.

    flatironinstitute/spack’s past year of commit activity
    Python 2 2,384 0 12 Updated Mar 3, 2025
  • jax-finufft Public

    JAX bindings to the Flatiron Institute Non-uniform Fast Fourier Transform (FINUFFT) library

    flatironinstitute/jax-finufft’s past year of commit activity
    Python 89 Apache-2.0 3 6 (1 issue needs help) 0 Updated Mar 3, 2025
  • nifty-ls Public

    A fast Lomb-Scargle periodogram. It's nifty, and uses a NUFFT!

    flatironinstitute/nifty-ls’s past year of commit activity
    Python 37 Apache-2.0 2 4 0 Updated Mar 3, 2025
  • disBatch Public

    Dynamic dispatch of a list of command-line tasks, locally or on a cluster. Supports retrying failed tasks, and adding/removing compute resources on-the-fly.

    flatironinstitute/disBatch’s past year of commit activity
    Python 45 Apache-2.0 9 7 0 Updated Mar 3, 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 10 GPL-3.0 2 4 0 Updated Mar 3, 2025
  • neurosift Public

    Browser-based NWB visualization and DANDI exploration

    flatironinstitute/neurosift’s past year of commit activity
    TypeScript 53 Apache-2.0 8 18 0 Updated Mar 3, 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++ 323 83 43 (3 issues need help) 8 Updated Mar 3, 2025
  • MutantAutoMate Public
    flatironinstitute/MutantAutoMate’s past year of commit activity
    Python 0 2 4 3 Updated Mar 2, 2025
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