Deep Medical Imaging Lab (PI Reuter)

FastSurfer

PyTorch implementation of FastSurferCNN

LaPy

Toolbox for Differential Geometry on Triangle and Tetrahedra Meshes (FEM, Laplace, Poisson, Heat Flow ...)

fsqc

A set of quality control scripts for FreeSurfer- and FastSurfer-processed structural MRI data

FatSegNet

Deep CNN for Abdominal Adipose Tissue Segmentation on Dixon MRI

BrainPrint-legacy

Python scripts for shape analysis of neuroimaging data (wrapping around shapeDNA and FreeSurfer)

BrainPrint

A python-only derivative of the original BrainPrint scripts

olf-bulb-segmentation

Automated Olfactory Bulb Segmentation Pipeline for T2-Weighted MRI

fslmer

Univariate and mass-univariate linear mixed-effects analysis for FreeSurfer imaging data.

3d-neuro-seg

Repository to our 3d neuro-anatomic segmentation method submitted to the MIDL 2022 conference

DISCUS

The repository contains code for the Geometric Deep Learning for Diffusion MRI Signal Reconstruction with Continuous Samplings (DISCUS) project

hipsta

HIPSTA - a python package for hippocampal shape and thickness analysis

Deep-MI.github.io

Deep Medical Imaging Lab Webpage

head-motion-from-MRI

Code for the paper "Estimating Head Motion from MRI", which predicts motion scores directly from MRI images.

fastsurfer-webpage

Jekyll Webpage for the FastSurfer project

head-motion-tools

VINNA4neonates

Newborn Whole Brain Segmentation with VINNA

WhipperSnapPy

Python OpenGL Tool for Screenshots of Surface Overlays