Flatiron Institute

CaImAn

Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.

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

sparse_dot

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

sciware

Learning materials for scientific software development

nixpack

nix+spack = nixpack (spanix?)

neurosift

Browser-based NWB visualization and DANDI exploration

mountainsort5

MountainSort spike sorting algorithm, version 5

slurm-prometheus-exporter

Prometheus exporter for slurm job/node data

nemos

NEural MOdelS, a statistical modeling framework for neuroscience.

kachery-cloud

SkellySim

Hydrodynamic Cytoskeleton Simulator

spikeforest

Spike sorting benchmarking system

dendro

Analyze neuroscience data in the cloud

ccq-software-build

CCQ software build scripts

flathub

A simple elasticsearch frontend for serving astrophysical simulation catalog data

pytorch-finufft

Pytorch wrappers for the FINUFFT library

cppdlr

Discrete Lehmann representation of imaginary time Green's functions

Ensemble-reweighting-using-Cryo-EM-particles

nifty-ls

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

PointCloud_Regression

Point Cloud regression with new algebraic representation on ModelNet dataset (ICCV 2023)

nomad

Non-linear Matrix Decomposition library

inferelator-velocity

Calculate dynamic (time-dependent) latent parameters from single-cell expression data

spack

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

dendro-docs

Documentation for Dendro

slurm

Slurm: A Highly Scalable Workload Manager

aLENS_analysis

Postprocessing & analysis scripts for aLENS data

jupyter-remote-desktop-proxy

Run a Linux Desktop on a JupyterHub

rockstar-rusty-demo

An example setup for the Rockstar halo finding code on the Rusty cluster