Repositories list

• FlatironMDCourse

  Public
  Flatiron Institute MD Course

  Jupyter Notebook

  •

  MIT License

  •1•6•0•0•Updated Nov 11, 2024Nov 11, 2024

• nixpack

  Public
  nix+spack = nixpack (spanix?)

  Nix

  •

  MIT License

  •4•38•1•4•Updated Nov 10, 2024Nov 10, 2024

• jax-finufft

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

  Python

  •

  Apache License 2.0

  •3•80•5•0•Updated Nov 10, 2024Nov 10, 2024

• spack

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

  Python

  •

  Other

  •2.3k•2•0•13•Updated Nov 9, 2024Nov 9, 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•39•8•1•Updated Nov 9, 2024Nov 9, 2024

• neurosift

  Public
  Browser-based NWB visualization and DANDI exploration

  TypeScript

  •

  Apache License 2.0

  •6•44•52•1•Updated Nov 9, 2024Nov 9, 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

  •38•98•21•1•Updated Nov 9, 2024Nov 9, 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 Nov 8, 2024Nov 8, 2024

• jupyter-remote-desktop-proxy

  Public
  Run a Linux Desktop on a JupyterHub

  Python

  •

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

  •106•0•0•0•Updated Nov 8, 2024Nov 8, 2024

• CryoLike

  Public
  Python

  •

  MIT License

  •0•5•0•0•Updated Nov 7, 2024Nov 7, 2024

• sciware

  Public
  Learning materials for scientific software development

  learningscienceeducation+ 1software-development

  HTML

  •35•78•2•0•Updated Nov 7, 2024Nov 7, 2024

• nemos

  Public
  NEural MOdelS, a statistical modeling framework for neuroscience.

  Python

  •

  MIT License

  •8•82•86•3•Updated Nov 7, 2024Nov 7, 2024

• MutantAutoMate

  Public
  Python

  •1•0•4•2•Updated Nov 7, 2024Nov 7, 2024

• neuroRSE

  Public
  Website for CCN's neuroRSE group

  CSS

  •

  MIT License

  •0•1•0•0•Updated Nov 7, 2024Nov 7, 2024

• sparse_dot

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

  pythonsparsesparse-matrix+ 4numpymatrix-multiplicationscipymkl

  Python

  •

  MIT License

  •11•74•2•0•Updated Nov 7, 2024Nov 7, 2024

• aLENS_analysis

  Public
  Postprocessing & analysis scripts for aLENS data

  Jupyter Notebook

  •

  Other

  •2•0•0•0•Updated Nov 7, 2024Nov 7, 2024

• lineage_viewer

  Public
  Graphical interface for editing a lineage and viewing related microscopy images

  Python

  •

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

  •1•1•0•1•Updated Nov 7, 2024Nov 7, 2024

• stan-playground

  Public
  Run Stan models in the browser

  TypeScript

  •

  Apache License 2.0

  •1•31•17•2•Updated Nov 7, 2024Nov 7, 2024

• flathub

  Public
  A simple elasticsearch frontend for serving astrophysical simulation catalog data

  Haskell

  •

  Apache License 2.0

  •6•10•14•0•Updated Nov 6, 2024Nov 6, 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 Nov 5, 2024Nov 5, 2024

• adapol

  Public
  Adaptive Pole Fitting for Quantum Many-Body Physics

  Jupyter Notebook

  •1•11•0•0•Updated Nov 5, 2024Nov 5, 2024

• finufft

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

  C++

  •

  Other

  •79•299•52•6•Updated Nov 5, 2024Nov 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•32•4•0•Updated Nov 4, 2024Nov 4, 2024

• inferelator-prior

  Public
  Gene regulatory network inference using DNA-binding motifs and chromatin accessibility data.

  networkinference

  Python

  •

  MIT License

  •3•9•0•0•Updated Nov 1, 2024Nov 1, 2024

• ExEnDiff

  Public
  Python

  •

  MIT License

  •0•1•0•0•Updated Oct 29, 2024Oct 29, 2024

• kachery-cloud

  Public
  Python

  •

  Apache License 2.0

  •4•21•9•1•Updated Oct 28, 2024Oct 28, 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•3•0•Updated Oct 23, 2024Oct 23, 2024

• c2py

  Public
  Clair/c2py low level library

  C++

  •

  Apache License 2.0

  •1•1•0•0•Updated Oct 22, 2024Oct 22, 2024

• cryosvd

  Public
  Jupyter Notebook

  •

  GNU General Public License v3.0

  •1•4•0•0•Updated Oct 14, 2024Oct 14, 2024

• 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

  •370•637•72•8•Updated Oct 12, 2024Oct 12, 2024