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    188 repositories

    • finufft

      Public
      Non-uniform fast Fourier transform library of types 1,2,3 in dimensions 1,2,3
      C++
      •
      Other
      •84•327•44•8•Updated Mar 12, 2025Mar 12, 2025

    • Cryo-EM-Heterogeneity-Challenge-1

      Public
      The Inaugural Flatiron Institute Cryo-EM Heterogeneity Community Challenge
      Jupyter Notebook
      •
      MIT License
      •0•8•21•3•Updated Mar 12, 2025Mar 12, 2025

    • cephdu

      Public
      A ncdu-like TUI for the Ceph File System, using xattrs instead of crawling
      Rust
      •
      MIT License
      •0•1•5•0•Updated Mar 11, 2025Mar 11, 2025

    • nemos

      Public
      NEural MOdelS, a statistical modeling framework for neuroscience.
      Python
      •
      MIT License
      •8•91•110•4•Updated Mar 11, 2025Mar 11, 2025

    • sciware

      Public
      Learning materials for scientific software development
      learningscienceeducationsoftware-development
      HTML
      •38•83•2•0•Updated Mar 11, 2025Mar 11, 2025

    • spack

      Public
      A flexible package manager that supports multiple versions, configurations, platforms, and compilers.
      Python
      •
      Other
      •2.4k•2•0•8•Updated Mar 11, 2025Mar 11, 2025

    • nixpack

      Public
      nix+spack = nixpack (spanix?)
      Nix
      •
      MIT License
      •4•46•1•5•Updated Mar 10, 2025Mar 10, 2025

    • neurosift

      Public
      Browser-based NWB visualization and DANDI exploration
      TypeScript
      •
      Apache License 2.0
      •8•53•17•0•Updated Mar 10, 2025Mar 10, 2025

    • stan-playground

      Public
      Run Stan models in the browser
      TypeScript
      •
      Apache License 2.0
      •1•42•11•1•Updated Mar 7, 2025Mar 7, 2025

    • mountainsort5

      Public
      MountainSort spike sorting algorithm, version 5
      Python
      •
      Apache License 2.0
      •10•42•19•1•Updated Mar 6, 2025Mar 6, 2025

    • simple_ans

      Public
      Simple ANS (Asymmetric Numeral Systems) implementation in Python/C++
      Python
      •
      Apache License 2.0
      •4•3•0•0•Updated Mar 5, 2025Mar 5, 2025

    • CryoLike

      Public
      Python
      •
      MIT License
      •4•8•7•4•Updated Mar 4, 2025Mar 4, 2025

    • 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
      •375•647•87•13•Updated Mar 4, 2025Mar 4, 2025

    • cryosvd

      Public
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •1•4•0•0•Updated Mar 3, 2025Mar 3, 2025

    • jax-finufft

      Public
      JAX bindings to the Flatiron Institute Non-uniform Fast Fourier Transform (FINUFFT) library
      Python
      •
      Apache License 2.0
      •3•89•6•0•Updated Mar 3, 2025Mar 3, 2025

    • 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•37•4•0•Updated Mar 3, 2025Mar 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.
      distributed-computingbatch-processing
      Python
      •
      Apache License 2.0
      •9•45•7•0•Updated Mar 3, 2025Mar 3, 2025

    • ManifoldEM

      Public
      Python package for determination of conformational continua of macromolecules from single-particle cryo-EM data
      Python
      •
      GNU General Public License v3.0
      •2•12•4•0•Updated Mar 3, 2025Mar 3, 2025

    • MutantAutoMate

      Public
      Python
      •2•0•4•3•Updated Mar 2, 2025Mar 2, 2025

    • neuroRSE

      Public
      Website for CCN's neuroRSE group
      CSS
      •
      MIT License
      •0•1•0•0•Updated Feb 20, 2025Feb 20, 2025

    • aLENS_analysis

      Public
      Postprocessing & analysis scripts for aLENS data
      Jupyter Notebook
      •
      Other
      •2•0•0•0•Updated Feb 20, 2025Feb 20, 2025

    • fmm2d

      Public
      This codebase is a set of libraries to compute N-body interactions governed by the Laplace and Helmholtz equations, to a specified precision, in two dimensions, on a multi-core shared-memory machine.
      Fortran
      •
      Apache License 2.0
      •12•24•6•0•Updated Feb 20, 2025Feb 20, 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.
      Python
      •1•0•0•0•Updated Feb 14, 2025Feb 14, 2025

    • clair

      Public
      Clair (Clang Introspection and Reflection) tools. A set of clang tools developed for Flatiron/CCQ
      C++
      •
      Apache License 2.0
      •2•15•1•0•Updated Feb 11, 2025Feb 11, 2025

    • c2py

      Public
      Clair/c2py low level library
      C++
      •
      Apache License 2.0
      •1•1•0•0•Updated Feb 11, 2025Feb 11, 2025

    • fasthog

      Public
      Reasonably fast implementation of Histogram of Oriented Gradients with python bindings
      C++
      •
      MIT License
      •1•0•0•0•Updated Feb 5, 2025Feb 5, 2025

    • neurorse-workshops

      Public
      Built workshop materials for the NeuroRSE packages
      HTML
      •
      MIT License
      •0•0•0•0•Updated Feb 4, 2025Feb 4, 2025

    • ccn-software-jan-2025

      Public
      Materials for CCN software workshop at Flatiron, Jan 2025
      Python
      •
      MIT License
      •0•0•0•0•Updated Feb 4, 2025Feb 4, 2025

    • cppdlr

      Public
      Discrete Lehmann representation of imaginary time Green's functions
      C++
      •
      Apache License 2.0
      •6•11•1•0•Updated Feb 4, 2025Feb 4, 2025

    • jenkins-webserver-template

      Public
      Template repo to serve as recipient of jenkins documentation build pushes
      Python
      •
      MIT License
      •0•0•0•0•Updated Feb 3, 2025Feb 3, 2025