17 open source projects by flatironinstitute

Complete Matlab pipeline for large scale calcium imaging data analysis

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

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

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

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

Spike sorting software being developed at Flatiron Institute, based on JRCLUST (Janelia Rocket Cluster)

This codebase is a set of libraries to compute N-body interactions governed by the Laplace and Helmholtz equations, to a specified precision, in two dimensions, on a multi-core shared-memory machine.

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

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

Neural Networks for Protein Sequence Alignment

nix+spack = nixpack (spanix?)

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.

Examples of using MountainSort spike sorting software.

Spike sorting software

Learning materials for scientific software development

A Python implementation of the model described in our publication "A convolutional neural network for common-coordinate registration of high-resolution histology images" developed principally for applications to registration of spatial transcriptomics image data.

A collection of computationally efficient algorithms for online subspace learning and principal component analysis