Next generation of spike sorting package for BMI

Low-latency neural signal processor (LLNSP)

EASI-FISH analysis pipeline for spatial transcriptomics

Ray is an AI compute engine. Ray consists of a core distributed runtime and a set of AI Libraries for accelerating ML workloads.

Paper on using GeNN for simulating very large-scale models

iPython widget for server-side ParaView rendering in Jupyter.

Very fast greedy diffeomorphic registration code

pipeline for volumetric cell segmentation

Magpie contains a number of scripts for running Big Data software in HPC environments, including Hadoop and Spark. There is support for Lustre, Slurm, Moab, Torque. LSF, Flux, and more.

PySpark-Tutorial provides basic algorithms using PySpark

scalable analysis of images and time series

Parallel computing with task scheduling

DEPRECATED: Use tvb-root. The science behind The Virtual Brain

Python script to convert .npy to .mat files.

Experimental code to read/write NumPy .NPY files in MATLAB

Software for the paper "Fast and robust active neuron segmentation in two-photon calcium imaging using spatio-temporal deep learning," Proceedings of the National Academy of Sciences (PNAS), 2019.

Tubular Geodesic,tool for tracing

3D Neuronal morphology analytical tool for deriving geometrical and topological statistics of digital neuronal reconstructions

Version of Cvapp as used on NeuroMorpho.org. Based on Robert Cannon's initial implementation.

Mirror of Visualization Toolkit repository

VTK-based Data Analysis and Visualization Application

Brian is a free, open source simulator for spiking neural networks.

3D visualization of scientific data in Python

A WebGL Volume Raycaster

NeuroAnatomy Toolbox: An R package for the (3D) visualisation and analysis of biological image data, especially tracings of single neurons.

GDL - GNU Data Language

Tool for visualizing 3D expression data in zebrafish

Flood-Filling Networks for instance segmentation in 3d volumes.