Repositories list

• 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-correction+ 3source-extractiondeconvolutioncnmf

  Python

  •

  GNU General Public License v2.0

  •368•630•66•9•Updated Oct 11, 2024Oct 11, 2024

• nemos

  Public
  NEural MOdelS, a statistical modeling framework for neuroscience.

  Python

  •

  MIT License

  •7•78•81•5•Updated Oct 11, 2024Oct 11, 2024

• neurosift

  Public
  Browser-based NWB visualization and DANDI exploration

  TypeScript

  •

  Apache License 2.0

  •6•44•51•1•Updated Oct 11, 2024Oct 11, 2024

• clair

  Public
  Clair (Clang Introspection and Reflection) tools. A set of clang tools developed for Flatiron/CCQ

  C++

  •

  Apache License 2.0

  •1•10•2•0•Updated Oct 11, 2024Oct 11, 2024

• adapol

  Public
  Adaptive Pole Fitting for Quantum Many-Body Physics

  Jupyter Notebook

  •0•11•0•0•Updated Oct 11, 2024Oct 11, 2024

• jax-finufft

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

  Python

  •

  Apache License 2.0

  •2•79•5•0•Updated Oct 10, 2024Oct 10, 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

  •36•94•21•1•Updated Oct 9, 2024Oct 9, 2024

• finufft

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

  C++

  •

  Other

  •73•291•51•6•Updated Oct 9, 2024Oct 9, 2024

• nixpack

  Public
  nix+spack = nixpack (spanix?)

  Python

  •

  MIT License

  •4•38•1•4•Updated Oct 9, 2024Oct 9, 2024

• stan-playground

  Public
  Run Stan models in the browser

  TypeScript

  •

  Apache License 2.0

  •1•5•15•1•Updated Oct 8, 2024Oct 8, 2024

• fasthog

  Public
  Reasonably fast implementation of Histogram of Oriented Gradients with python bindings

  C++

  •

  MIT License

  •0•0•0•0•Updated Oct 5, 2024Oct 5, 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•33•4•0•Updated Oct 5, 2024Oct 5, 2024

• sparse_dot

  Public
  Python wrapper for Intel Math Kernel Library (MKL) matrix multiplication

  pythonsparsesparse-matrix+ 4numpymatrix-multiplicationscipymkl

  Python

  •

  MIT License

  •10•73•2•0•Updated Oct 4, 2024Oct 4, 2024

• spack

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

  Python

  •

  Other

  •2.3k•2•0•13•Updated Oct 4, 2024Oct 4, 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

  •0•0•0•0•Updated Oct 3, 2024Oct 3, 2024

• Sommerfeld

  Public
  Codes for layered dielectric media

  Fortran

  •

  Apache License 2.0

  •0•0•0•0•Updated Oct 2, 2024Oct 2, 2024

• FlatironMDCourse

  Public
  Flatiron Institute MD Course

  MIT License

  •0•0•0•0•Updated Oct 2, 2024Oct 2, 2024

• sciware

  Public
  Learning materials for scientific software development

  learningscienceeducation+ 1software-development

  HTML

  •34•77•2•0•Updated Oct 2, 2024Oct 2, 2024

• neuroRSE

  Public
  Website for CCN's neuroRSE group

  CSS

  •

  MIT License

  •0•1•0•0•Updated Oct 1, 2024Oct 1, 2024

• sciware_awful_cp

  Public
  Example of a small package that won't work with the system libstdc++

  C++

  •

  MIT License

  •0•0•0•0•Updated Oct 1, 2024Oct 1, 2024

• MutantAutoMate

  Public
  Python

  •0•0•4•2•Updated Sep 27, 2024Sep 27, 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

  •0•4•3•0•Updated Sep 26, 2024Sep 26, 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 Sep 26, 2024Sep 26, 2024

• aLENS_analysis

  Public
  Postprocessing & analysis scripts for aLENS data

  Jupyter Notebook

  •

  Other

  •2•0•0•0•Updated Sep 24, 2024Sep 24, 2024

• pytorch-finufft

  Public
  Pytorch wrappers for the FINUFFT library

  Python

  •

  MIT License

  •0•13•4•1•Updated Sep 23, 2024Sep 23, 2024

• cppdlr

  Public
  Discrete Lehmann representation of imaginary time Green's functions

  C++

  •

  Apache License 2.0

  •4•10•1•0•Updated Sep 20, 2024Sep 20, 2024

• staged-recipes

  Public
  A place to submit conda recipes before they become fully fledged conda-forge feedstocks

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •4.9k•0•0•0•Updated Sep 19, 2024Sep 19, 2024

• c2py

  Public
  Clair/c2py low level library

  C++

  •

  Apache License 2.0

  •1•1•0•0•Updated Sep 13, 2024Sep 13, 2024

• cryoSBI

  Public
  Python

  •0•7•14•0•Updated Sep 11, 2024Sep 11, 2024

• spikeforest

  Public
  Spike sorting benchmarking system

  Python

  •

  Apache License 2.0

  •6•23•12•0•Updated Sep 9, 2024Sep 9, 2024