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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 647 375

  2. finufft finufft Public

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

    C++ 327 84

  3. DeepFRI DeepFRI Public

    Deep functional residue identification

    Python 315 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 148 93

  6. deepblast deepblast Public

    Neural Networks for Protein Sequence Alignment

    Python 119 21

Repositories

Showing 10 of 188 repositories
  • 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++ 327 84 44 (3 issues need help) 8 Updated Mar 12, 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 21 3 Updated Mar 12, 2025
  • cephdu Public

    A ncdu-like TUI for the Ceph File System, using xattrs instead of crawling

    flatironinstitute/cephdu’s past year of commit activity
    Rust 1 MIT 0 5 0 Updated Mar 11, 2025
  • nemos Public

    NEural MOdelS, a statistical modeling framework for neuroscience.

    flatironinstitute/nemos’s past year of commit activity
    Python 91 MIT 8 110 (1 issue needs help) 4 Updated Mar 11, 2025
  • sciware Public

    Learning materials for scientific software development

    flatironinstitute/sciware’s past year of commit activity
    HTML 83 38 2 0 Updated Mar 11, 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 2,388 0 8 Updated Mar 11, 2025
  • nixpack Public

    nix+spack = nixpack (spanix?)

    flatironinstitute/nixpack’s past year of commit activity
    Nix 46 MIT 4 1 5 Updated Mar 10, 2025
  • neurosift Public

    Browser-based NWB visualization and DANDI exploration

    flatironinstitute/neurosift’s past year of commit activity
    TypeScript 53 Apache-2.0 8 17 0 Updated Mar 10, 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 11 1 Updated Mar 7, 2025
  • mountainsort5 Public

    MountainSort spike sorting algorithm, version 5

    flatironinstitute/mountainsort5’s past year of commit activity
    Python 42 Apache-2.0 10 19 1 Updated Mar 6, 2025
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