Partitioning images into meaningful regions

Repository for training and using a contrast agnostic registration model based on the work done in SynthMorph. The contrast agnostic registration model may later be used in IvadoMed’s pipeline.

Longitudinal Automatic Segmentation of Hippocampal Subfields (LASHiS) using multi-contrast MRI.

Open Source Hypothalamic Atlas and Segmentation for 3T and 7T

"Myelin and Relaxation" (MyRelax) is a collection of command line scripts written in Python 3 for myelin and relaxometry MRI. MyRelax was developed as part of the CDS-QuaMRI project (https://cordis…

Advanced Normalization Tools (ANTs)

GNU R package for reading and writing neuroimaging file formats. Not limited to FreeSurfer anymore, despite its name.

R library for structural neuroimaging. Provides high-level functions to access (read and write) and visualize surface-based brain morphometry data for individuals and groups.

Nature is a language---can't you read?

defacing utility for MRI images

Julia module for reading/writing NIfTI MRI files

Specialized tools for MRI

Pre-trained models and utilities for deep learning on medical images in Python (Keras/TensorFlow)

BrainBox is a web application that lets you annotate and segment 3D brain imaging data in real time, collaboratively.