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

  •369•646•77•9•Updated Jan 18, 2025Jan 18, 2025

• Cryo-EM-Heterogeneity-Challenge-1

  Public
  The Inaugural Flatiron Institute Cryo-EM Heterogeneity Community Challenge

  Jupyter Notebook

  •

  MIT License

  •0•6•17•1•Updated Jan 18, 2025Jan 18, 2025

• adapol

  Public
  Adaptive Pole Fitting for Quantum Many-Body Physics

  Jupyter Notebook

  •

  GNU General Public License v3.0

  •1•11•1•0•Updated Jan 17, 2025Jan 17, 2025

• neurorse-workshops

  Public
  Built workshop materials for the NeuroRSE packages

  Jupyter Notebook

  •

  MIT License

  •0•0•0•0•Updated Jan 16, 2025Jan 16, 2025

• ccn-software-jan-2025

  Public
  Materials for CCN software workshop at Flatiron, Jan 2025

  Python

  •

  MIT License

  •0•0•0•2•Updated Jan 16, 2025Jan 16, 2025

• jenkins-webserver-template

  Public
  Template repo to serve as recipient of jenkins documentation build pushes

  Python

  •

  MIT License

  •0•0•0•0•Updated Jan 16, 2025Jan 16, 2025

• nemos

  Public
  NEural MOdelS, a statistical modeling framework for neuroscience.

  Python

  •

  MIT License

  •8•85•101•2•Updated Jan 15, 2025Jan 15, 2025

• stan-playground

  Public
  Run Stan models in the browser

  TypeScript

  •

  Apache License 2.0

  •1•40•18•3•Updated Jan 14, 2025Jan 14, 2025

• wasmlets

  Public
  TypeScript

  •

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

  •0•1•1•0•Updated Jan 14, 2025Jan 14, 2025

• web-wavelets-benchmarking

  Public
  Wasmlets vs Pyodide vs discrete-wavelets benchmark

  TypeScript

  •1•0•0•0•Updated Jan 14, 2025Jan 14, 2025

• CryoLike

  Public
  Python

  •

  MIT License

  •3•7•3•1•Updated Jan 14, 2025Jan 14, 2025

• spreadkernel

  Public
  Small library that smears non-uniformly distributed points onto a uniform grid, via a user supplied spreading kernel. This project is supported by the Simons Foundation's Flatiron Institute.

  C++

  •

  Other

  •0•0•0•0•Updated Jan 13, 2025Jan 13, 2025

• neuroRSE

  Public
  Website for CCN's neuroRSE group

  CSS

  •

  MIT License

  •0•1•0•0•Updated Jan 12, 2025Jan 12, 2025

• dendro-docs

  Public
  Documentation for Dendro

  TypeScript

  •1•1•3•0•Updated Jan 10, 2025Jan 10, 2025

• finufft

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

  C++

  •

  Other

  •81•311•53•8•Updated Jan 10, 2025Jan 10, 2025

• indico-slack-bot

  Public
  Bot that sends daily updates of Indico events to Slack.

  JavaScript

  •

  Apache License 2.0

  •1•1•0•0•Updated Jan 10, 2025Jan 10, 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

  •11•24•6•0•Updated Jan 9, 2025Jan 9, 2025

• spack

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

  Python

  •

  Other

  •2.3k•2•0•16•Updated Jan 9, 2025Jan 9, 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•36•4•0•Updated Jan 7, 2025Jan 7, 2025

• jax-finufft

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

  Python

  •

  Apache License 2.0

  •3•84•6•0•Updated Jan 7, 2025Jan 7, 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•44•7•0•Updated Jan 7, 2025Jan 7, 2025

• neurosift

  Public
  Browser-based NWB visualization and DANDI exploration

  TypeScript

  •

  Apache License 2.0

  •6•50•67•1•Updated Dec 27, 2024Dec 27, 2024

• cryosvd

  Public
  Jupyter Notebook

  •

  GNU General Public License v3.0

  •1•4•0•0•Updated Dec 24, 2024Dec 24, 2024

• cryoSBI

  Public
  Python

  •0•10•14•0•Updated Dec 16, 2024Dec 16, 2024

• nixpack

  Public
  nix+spack = nixpack (spanix?)

  Nix

  •

  MIT License

  •4•44•1•4•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

• 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

• 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