πŸ–₯ SoftwareΒΆ

Open-Source ProjectsΒΆ

Below is a list of software projects created at NeuroPoly or at collaborative institutions. These projects are open source and freely available.

MRIΒΆ

Name

Description

Source

Documentation

ivadomed

Comprehensive and open-source repository of deep learning methods for medical data segmentation

Source

Documentation

Multiclass Segmentation

Code related to the NIH marmoset longitudinal segmentation project

Source

Documentation

qMRLab

Software for data aimulation, analysis, and visualization of qMRI data (Magnetization Transfer, Diffusion, etc.)

Source

Documentation

Shimming Toolbox

Code for performing real-time shimming using external MRI shim coils

Source

Documentation

Spinal Cord Toolbox

Comprehensive and open-source library of analysis tools for multi-parametric MRI of the spinal cord

Source

Documentation

Template

A framework for creating unbiased MRI templates of the spinal cord

Source

Documentation

HistologyΒΆ

Name

Description

Source

Documentation

Atlas Rat

Scripts to generate a microstructure atlas of the rat spinal cord

Source

Documentation

AxonSeg

Automatic segmentation of axon and myelin from microscopy data

Source

Documentation

AxonDeepSeg

Segmentation software for microscopy data using deep learning

Source

Documentation

AxonPacking

Simulation software for arrangements of axons in white matter

Source

Documentation

Tract Clustering

Data-driven approach for tracts in rat histology

Source

Documentation

ContributingΒΆ

NeuroPoly welcomes and appreciates contributions. To get started, please check out NeuroPoly’s contributing guidelines.