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    227 repositories

    • nemos

      Public
      NEural MOdelS, a statistical modeling framework for neuroscience.
      Python
      •
      MIT License
      •17•131•124•16•Updated Apr 21, 2026Apr 21, 2026

    • numbl

      Public
      Numerical computing environment that aims to be compatible with Matlab
      TypeScript
      •
      Apache License 2.0
      •1•9•5•3•Updated Apr 21, 2026Apr 21, 2026

    • dmk

      Public
      A Dual-space Multilevel Kernel-splitting (DMK) Framework for Discrete and Continuous Convolution
      C++
      •
      Apache License 2.0
      •5•21•13•3•Updated Apr 21, 2026Apr 21, 2026

    • ManifoldEM

      Public
      Python package for determination of conformational continua of macromolecules from single-particle cryo-EM data
      Python
      •
      GNU General Public License v3.0
      •3•15•5•1•Updated Apr 21, 2026Apr 21, 2026

    • finufft

      Public
      Non-uniform fast Fourier transform library of types 1,2,3 in dimensions 1,2,3 on the CPU or GPU
      nfftnufft
      nfftnufft
      C++
      •
      Other
      •100•410•43•8•Updated Apr 21, 2026Apr 21, 2026

    • walnuts

      Public
      Within-orbit Adaptive Leapfrog No-U-Turn Sampler
      samplingstanmcmc
      samplingstanmcmchmc
      C++
      •
      MIT License
      •2•42•9•2•Updated Apr 21, 2026Apr 21, 2026

    • adapol

      Public
      Adaptive Pole Fitting for Quantum Many-Body Physics
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •4•13•1•0•Updated Apr 21, 2026Apr 21, 2026

    • masala_public

      Public
      The public repository for the Core library of the Masala software suite. Masala is a set of free and open-source tools for biomolecular modelling, with a plugi…
      C++
      •
      GNU Affero General Public License v3.0
      •1•9•1•0•Updated Apr 20, 2026Apr 20, 2026

    • ParticleMeshEwald.jl

      Public
      Particle mesh Ewald via NonuniformFFTs.jl
      Julia
      •
      MIT License
      •0•2•0•3•Updated Apr 20, 2026Apr 20, 2026

    • docker-alpine-nfs-server

      Public
      A handy Alpine Linux based NFS Server image running NFS v4 only, over TCP on port 2049
      Shell
      •
      GNU General Public License v3.0
      •207•0•0•0•Updated Apr 20, 2026Apr 20, 2026

    • baobzi

      Public
      An adaptive fast function approximator based on tree search
      pythonccmake
      pythonccmakecppfortranjuliamatlabeigenapproximationmsgpack
      C++
      •
      Apache License 2.0
      •4•19•13•1•Updated Apr 18, 2026Apr 18, 2026

    • cryojax-ensemble-optimization

      Public
      Python
      •
      MIT License
      •1•5•8•1•Updated Apr 17, 2026Apr 17, 2026

    • CaImAn

      Public
      Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result v…
      calcium-imagingmotion-correctionsource-extraction
      calcium-imagingmotion-correctionsource-extractiondeconvolution2-photoncnmf
      Python
      •
      GNU General Public License v2.0
      •397•722•87•13•Updated Apr 16, 2026Apr 16, 2026

    • cppdlr

      Public
      Discrete Lehmann representation of imaginary time Green's functions
      C++
      •
      Apache License 2.0
      •6•12•1•0•Updated Apr 15, 2026Apr 15, 2026

    • cryoSBI

      Public
      Python
      •5•14•16•5•Updated Apr 15, 2026Apr 15, 2026

    • binderhub

      Public
      Deterministically build docker images from a git repository + commit
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •404•2•2•0•Updated Apr 15, 2026Apr 15, 2026

    • masala_public_seating_optimization_plugins

      Public
      A Masala library demonstrating the use of Masala's plugin CFN optimizers and data representations for a problem different than protein design: wedding reception…
      C++
      •
      GNU Affero General Public License v3.0
      •0•0•0•0•Updated Apr 14, 2026Apr 14, 2026

    • neurosift

      Public
      Browser-based NWB visualization and DANDI exploration
      pypilivenwb
      pypilivenwbneurosiftdandi
      TypeScript
      •
      Apache License 2.0
      •15•64•54•5•Updated Apr 14, 2026Apr 14, 2026

    • psyphy

      Public
      Active-learning-driven adaptive experiments in psychophysics.
      psychophysicsactive-learningadaptive-experimentation
      psychophysicsactive-learningadaptive-experimentation
      Python
      •
      MIT License
      •2•5•32•1•Updated Apr 13, 2026Apr 13, 2026

    • Cryo-EM-Heterogeneity-Challenge-1

      Public
      The Inaugural Flatiron Institute Cryo-EM Heterogeneity Community Challenge
      Jupyter Notebook
      •
      MIT License
      •1•12•26•5•Updated Apr 10, 2026Apr 10, 2026

    • cephdu

      Public
      A ncdu-like TUI for the Ceph File System, using xattrs instead of crawling
      cephdisk-usagencdu
      cephdisk-usagencdu
      Rust
      •
      MIT License
      •0•2•15•0•Updated Apr 9, 2026Apr 9, 2026

    • nifty-ls

      Public
      A fast Lomb-Scargle periodogram. It's nifty, and uses a NUFFT!
      time-serieslomb-scargle-periodogramspectral-analysis
      time-serieslomb-scargle-periodogramspectral-analysis
      Python
      •
      Apache License 2.0
      •6•47•7•1•Updated Apr 9, 2026Apr 9, 2026

    • clair

      Public
      Clair (Clang Introspection and Reflection) tools. A set of clang tools developed for Flatiron/CCQ
      C++
      •
      Apache License 2.0
      •3•19•1•1•Updated Apr 7, 2026Apr 7, 2026

    • c2py

      Public
      Clair/c2py low level library
      C++
      •
      Apache License 2.0
      •1•6•0•1•Updated Apr 7, 2026Apr 7, 2026

    • jax-finufft

      Public
      JAX bindings to the Flatiron Institute Non-uniform Fast Fourier Transform (FINUFFT) library
      C++
      •
      Apache License 2.0
      •11•131•10•3•Updated Apr 6, 2026Apr 6, 2026

    • 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
      distributed-computingbatch-processing
      Python
      •
      Apache License 2.0
      •10•46•7•0•Updated Apr 6, 2026Apr 6, 2026

    • stan-playground

      Public
      Run Stan models in the browser
      wasmlivestan
      wasmlivestanstan-playground
      TypeScript
      •
      Apache License 2.0
      •1•58•11•1•Updated Apr 6, 2026Apr 6, 2026

    • 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 equatio…
      Fortran
      •
      Other
      •52•148•21•0•Updated Apr 2, 2026Apr 2, 2026

    • slurm-prometheus-exporter

      Public
      Prometheus exporter for slurm job/node data
      Haskell
      •10•40•5•1•Updated Apr 2, 2026Apr 2, 2026

    • PyBenchFramework

      Public
      BenchmarkToolkit is a Python library designed to simplify and streamline benchmarking tasks. This library provides a high-level abstraction over various benchma…
      Python
      •1•0•0•1•Updated Mar 18, 2026Mar 18, 2026
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