Julian McGinnis's repositories
multi_contrast_inr
Source Code for our MICCAI Paper: Single-subject Multi-contrast MRI Super-resolution via Implicit Neural Representations.
voreen_tools
Provides current Voreen Sources (with modifications) by Uni Münster to build voreen for PC, server or lrz cluster, including workspaces and scripts optimized for graph extraction on datasets utilized by IBBM@TUM.
ich_segmentation
Source code for setting up training of nn-UNet based model for ICH segmentation, and the visualization of the results,
miccai_amai_lesions_spine
Deep-learning based segmentation of the spinal cord lesion project
registration
This repository provides tools to stitch sagittally and axially acquired MRI stacks to a common image.
spinalcordtoolbox
Comprehensive and open-source library of analysis tools for MRI of the spinal cord.
vessel_graph_pipeline
This repository hosts source code for an automated voreen-based pipeline covering graph generation, post processing, atlas annotation and statistical analysis.
ArSSR
[peer review] An Arbitrary Scale Super-Resolution Approach for 3D MR Images using Implicit Neural Representation
awesome-implicit-representations
A curated list of resources on implicit neural representations.
build_biomedia_stitching
This is a repository to facilitate the integration of BioMedIA's stitching module for spinal cord toolbox.
discover-eeg
A pipeline to automatically preprocess, analyze and visualize resting state EEG data.
ginr-ipc
The official implementation of Generalizable Implicit Neural Representations with Instance Pattern Composers(CVPR’23 highlight).
HD-BET
MRI brain extraction tool
ITKMontage
Montaging for microscopy imaging files
ivadomed
Repository on the collaborative IVADO medical imaging project between the Mila and NeuroPoly labs.
latent-diffusion
High-Resolution Image Synthesis with Latent Diffusion Models
MedicalNet
Many studies have shown that the performance on deep learning is significantly affected by volume of training data. The MedicalNet project provides a series of 3D-ResNet pre-trained models and relative code.
ogb
Benchmark datasets, data loaders, and evaluators for graph machine learning
Pytorch-UNet
PyTorch implementation of the U-Net for image semantic segmentation with high quality images
RadImageNet
RadImageNet, a pre-trained convolutional neural networks trained solely from medical imaging to be used as the basis of transfer learning for medical imaging applications.
SEAL_OGB
An open-source implementation of SEAL for link prediction in open graph benchmark (OGB) datasets.
stitching
Stitching tool for composing whole-body scans from multiple stations
ukbiobank-spinalcord-csa
Measure of the averaged cross-sectional area (cord CSA) between C2 and C3 of the spinal cord with UK Biobank Brain MRI dataset.