Pinned Repositories
CaImAn
Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.
CaImAn-MATLAB
Complete Matlab pipeline for large scale calcium imaging data analysis
cufinufft
Nonuniform fast Fourier transforms of types 1 and 2, in 1D, 2D, and 3D, on the GPU
deepblast
Neural Networks for Protein Sequence Alignment
DeepFRI
Deep functional residue identification
finufft
Non-uniform fast Fourier transform library of types 1,2,3 in dimensions 1,2,3
FMM3D
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.
jax-finufft
JAX bindings to the Flatiron Institute Non-uniform Fast Fourier Transform (FINUFFT) library
nemos
NEural MOdelS, a statistical modeling framework for neuroscience.
NoRMCorre
Matlab routines for online non-rigid motion correction of calcium imaging data
Flatiron Institute's Repositories
flatironinstitute/CaImAn
Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.
flatironinstitute/finufft
Non-uniform fast Fourier transform library of types 1,2,3 in dimensions 1,2,3
flatironinstitute/deepblast
Neural Networks for Protein Sequence Alignment
flatironinstitute/FMM3D
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.
flatironinstitute/nemos
NEural MOdelS, a statistical modeling framework for neuroscience.
flatironinstitute/jax-finufft
JAX bindings to the Flatiron Institute Non-uniform Fast Fourier Transform (FINUFFT) library
flatironinstitute/sciware
Learning materials for scientific software development
flatironinstitute/sparse_dot
Python wrapper for Intel Math Kernel Library (MKL) matrix multiplication
flatironinstitute/neurosift
Browser-based NWB visualization and DANDI exploration
flatironinstitute/disBatch
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.
flatironinstitute/nixpack
nix+spack = nixpack (spanix?)
flatironinstitute/stan-playground
Run Stan models in the browser
flatironinstitute/nifty-ls
A fast Lomb-Scargle periodogram. It's nifty, and uses a NUFFT!
flatironinstitute/adapol
Adaptive Pole Fitting for Quantum Many-Body Physics
flatironinstitute/clair
Clair (Clang Introspection and Reflection) tools. A set of clang tools developed for Flatiron/CCQ
flatironinstitute/flathub
A simple elasticsearch frontend for serving astrophysical simulation catalog data
flatironinstitute/inferelator-prior
Gene regulatory network inference using DNA-binding motifs and chromatin accessibility data.
flatironinstitute/ManifoldEM
Python package for determination of conformational continua of macromolecules from single-particle cryo-EM data
flatironinstitute/Cryo-EM-Heterogeneity-Challenge-1
The Inaugural Flatiron Institute Cryo-EM Heterogeneity Community Challenge
flatironinstitute/FlatironMDCourse
Flatiron Institute MD Course
flatironinstitute/CryoLike
flatironinstitute/ExEnDiff
flatironinstitute/spack
A flexible package manager that supports multiple versions, configurations, platforms, and compilers.
flatironinstitute/c2py
Clair/c2py low level library
flatironinstitute/lineage_viewer
Graphical interface for editing a lineage and viewing related microscopy images
flatironinstitute/neuroRSE
Website for CCN's neuroRSE group
flatironinstitute/MutantAutoMate
flatironinstitute/aLENS_analysis
Postprocessing & analysis scripts for aLENS data
flatironinstitute/jupyter-remote-desktop-proxy
Run a Linux Desktop on a JupyterHub
flatironinstitute/PyBenchFramework
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.