Owner

flatironinstitute

89 indexed repositories · View on GitHub

• CaImAn

  Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike dec...

  Python · 737 stars

• finufft

  Non-uniform fast Fourier transform library of types 1,2,3 in dimensions 1,2,3 on the CPU or GPU

  C++ · 444 stars

• DeepFRI

  Deep functional residue identification

  Python · 356 stars

• CaImAn-MATLAB

  Complete Matlab pipeline for large scale calcium imaging data analysis

  MATLAB · 261 stars

• FMM3D

  Flatiron Institute Fast Multipole Libraries --- This codebase is a set of libraries to compute N-body interactions governed by the Laplac...

  Fortran · 160 stars

• NoRMCorre

  Matlab routines for online non-rigid motion correction of calcium imaging data

  MATLAB · 159 stars

• nemos

  NEural MOdelS, a statistical modeling framework for neuroscience.

  Python · 144 stars

• deepblast

  Neural Networks for Protein Sequence Alignment

  Python · 140 stars

• jax-finufft

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

  C++ · 140 stars

• cufinufft

  Nonuniform fast Fourier transforms of types 1 and 2, in 1D, 2D, and 3D, on the GPU

  Cuda · 102 stars

• sciware

  Learning materials for scientific software development

  HTML · 96 stars

• sparse_dot

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

  Python · 93 stars

• walnutpie

  Within-orbit Adaptive Leapfrog No-U-Turn Sampler

  C++ · 66 stars

• neurosift

  Browser-based NWB visualization and DANDI exploration

  TypeScript · 65 stars

• mountainsort5

  MountainSort spike sorting algorithm, version 5

  Python · 63 stars

• stan-playground

  Run Stan models in the browser

  TypeScript · 61 stars

• inferelator

  Task-based gene regulatory network inference using single-cell or bulk gene expression data conditioned on a prior network.

  Python · 56 stars

• nixpack

  nix+spack = nixpack (spanix?)

  Nix · 54 stars

• nifty-ls

  A fast Lomb-Scargle periodogram. It's nifty, and uses a NUFFT!

  Python · 53 stars

• disBatch

  Dynamic dispatch of a list of command-line tasks, locally or on a cluster. Supports retrying failed tasks, and adding/removing compute re...

  Python · 50 stars

• 69 more repositories live on View on GitHub