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    181 repositories

    • CaImAn

      Public
      Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.
      2-photoncalcium-imagingmotion-correctionsource-extractiondeconvolutioncnmf
      Python
      •
      GNU General Public License v2.0
      •371•643•75•9•Updated Dec 11, 2024Dec 11, 2024

    • neurosift

      Public
      Browser-based NWB visualization and DANDI exploration
      TypeScript
      •
      Apache License 2.0
      •6•47•56•1•Updated Dec 11, 2024Dec 11, 2024

    • cryosvd

      Public
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •1•4•0•0•Updated Dec 11, 2024Dec 11, 2024

    • nemos

      Public
      NEural MOdelS, a statistical modeling framework for neuroscience.
      Python
      •
      MIT License
      •8•83•96•6•Updated Dec 11, 2024Dec 11, 2024

    • neuroRSE

      Public
      Website for CCN's neuroRSE group
      CSS
      •
      MIT License
      •0•1•0•0•Updated Dec 11, 2024Dec 11, 2024

    • jenkins-webserver-template

      Public
      Template repo to serve as recipient of jenkins documentation build pushes
      Python
      •
      MIT License
      •0•0•0•0•Updated Dec 11, 2024Dec 11, 2024

    • Cryo-EM-Heterogeneity-Challenge-1

      Public
      The Inaugural Flatiron Institute Cryo-EM Heterogeneity Community Challenge
      Jupyter Notebook
      •
      MIT License
      •0•6•17•3•Updated Dec 10, 2024Dec 10, 2024

    • spack

      Public
      A flexible package manager that supports multiple versions, configurations, platforms, and compilers.
      Python
      •
      Other
      •2.3k•2•0•13•Updated Dec 10, 2024Dec 10, 2024

    • nixpack

      Public
      nix+spack = nixpack (spanix?)
      Nix
      •
      MIT License
      •4•39•1•4•Updated Dec 10, 2024Dec 10, 2024

    • stan-playground

      Public
      Run Stan models in the browser
      TypeScript
      •
      Apache License 2.0
      •1•37•19•3•Updated Dec 10, 2024Dec 10, 2024

    • 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.
      Python
      •1•0•0•0•Updated Dec 10, 2024Dec 10, 2024

    • finufft

      Public
      Non-uniform fast Fourier transform library of types 1,2,3 in dimensions 1,2,3
      C++
      •
      Other
      •80•306•54•8•Updated Dec 9, 2024Dec 9, 2024

    • jax-finufft

      Public
      JAX bindings to the Flatiron Institute Non-uniform Fast Fourier Transform (FINUFFT) library
      Python
      •
      Apache License 2.0
      •3•84•6•1•Updated Dec 8, 2024Dec 8, 2024

    • CryoLike

      Public
      Python
      •
      MIT License
      •1•6•0•0•Updated Dec 7, 2024Dec 7, 2024

    • 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.
      distributed-computingbatch-processing
      Python
      •
      Apache License 2.0
      •9•42•7•0•Updated Dec 5, 2024Dec 5, 2024

    • ManifoldEM

      Public
      Python package for determination of conformational continua of macromolecules from single-particle cryo-EM data
      Python
      •
      GNU General Public License v3.0
      •1•7•3•0•Updated Dec 5, 2024Dec 5, 2024

    • adapol

      Public
      Adaptive Pole Fitting for Quantum Many-Body Physics
      Jupyter Notebook
      •1•11•0•0•Updated Dec 4, 2024Dec 4, 2024

    • nifty-ls

      Public
      A fast Lomb-Scargle periodogram. It's nifty, and uses a NUFFT!
      time-serieslomb-scargle-periodogramspectral-analysis
      Python
      •
      Apache License 2.0
      •2•32•4•0•Updated Dec 2, 2024Dec 2, 2024

    • the_well_web

      Public
      Tools for building a website featuring visualizations from polymathic/the_well
      Jupyter Notebook
      •0•0•0•0•Updated Dec 2, 2024Dec 2, 2024

    • pytorch-finufft

      Public
      Pytorch wrappers for the FINUFFT library
      Python
      •
      MIT License
      •0•12•5•1•Updated Dec 2, 2024Dec 2, 2024

    • aLENS_analysis

      Public
      Postprocessing & analysis scripts for aLENS data
      Jupyter Notebook
      •
      Other
      •2•0•0•0•Updated Dec 2, 2024Dec 2, 2024

    • figurl

      Public
      Shareable, interactive scientific figures in the cloud
      Python
      •
      Apache License 2.0
      •4•34•2•0•Updated Nov 22, 2024Nov 22, 2024

    • sciware

      Public
      Learning materials for scientific software development
      learningscienceeducationsoftware-development
      HTML
      •35•79•2•0•Updated Nov 21, 2024Nov 21, 2024

    • 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.
      Fortran
      •
      Other
      •40•103•21•1•Updated Nov 21, 2024Nov 21, 2024

    • MutantAutoMate

      Public
      Python
      •1•0•4•2•Updated Nov 15, 2024Nov 15, 2024

    • c2py

      Public
      Clair/c2py low level library
      C++
      •
      Apache License 2.0
      •1•1•0•0•Updated Nov 14, 2024Nov 14, 2024

    • clair

      Public
      Clair (Clang Introspection and Reflection) tools. A set of clang tools developed for Flatiron/CCQ
      C++
      •
      Apache License 2.0
      •2•11•1•0•Updated Nov 14, 2024Nov 14, 2024

    • flathub

      Public
      A simple elasticsearch frontend for serving astrophysical simulation catalog data
      Haskell
      •
      Apache License 2.0
      •6•10•14•0•Updated Nov 13, 2024Nov 13, 2024

    • FlatironMDCourse

      Public
      Flatiron Institute MD Course
      Jupyter Notebook
      •
      MIT License
      •1•7•0•0•Updated Nov 13, 2024Nov 13, 2024

    • deepblast

      Public
      Neural Networks for Protein Sequence Alignment
      protein-structurelanguage-modelingproteinneural-networksprotein-sequencessequence-alignmentstructural-alignments
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •21•114•24•8•Updated Nov 11, 2024Nov 11, 2024