Tools

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Images

Local

SynapseAnalysis

SynapseAnalysis (PSD) is a framework to evaluate synaptic antibodies for fluorescence array tomography (AT)

VESICLE

Synapse detection from serial electron microscopy data. VESICLE has now been subsumed by VESICLE-CNN-2.

ndmg

ndmg combines diffusion and functional MRI data from individuals to estimate connectome reliably and scalably, and compare populations.

ndreg

ndreg is a Python package that performs non-linear affine and deformable image registration.

oopsi

oopsi is a tool for performing model-based spike train inference from calcium imaging. OOPSI has now been subsumed by CaImAn.

Cloud

MRICloud

MRICloud provides high-throughput neuroinformatics for automated brain MRI segmentation and analytical tools for quantification

ndex

ndex allows exchange of large image volumes with NeuroData

ndviz

NeuroDataViz (ndviz) is a fork of Neuroglancer, a web tool for viewing datasets stored using NeuroData's infrastructure.

ndwebtools

ndwebtools is a web application that provides NeuroData tools for managing and viewing data on NeuroData's spatial database store.

Graphs

Local

FlashGraph

FlashX are big data analytics tools that perform data analytics in the form of graphs and matrices!

graphstats

Utilities and algorithms designed for processing and analysis of graphs with specialized graph statistical algorithms

Vectors

Local

MGC

Multiscale Graph Correlation (MGC) is a framework for universally consistent testing high-dimensional and non-Euclidean data.

knorR

knorR is a highly optimized and fast library for computing k-means in parallel with accelerations for Non-Uniform Memory Access ('NUMA') architectures.

Randomer Forest

Randomer Forest is an improved random forest algorithm that achieves better accuracy and scaling than previous implementations on a standard suite of >100 benchmark problems.

FlashX

FlashX are big data analytics tools that perform data analytics in the form of graphs and matrices!

lolR
lolP

Linear Optimal Low-rank (LOL) projection for improved classification performance in high-dimensional classification tasks

meda
pymeda

meda implements the top 10 analyses/visualizations we recommend for any matrix valued data.