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3dunetcnn

Keras 3D U-Net Convolution Neural Network (CNN) designed for medical image segmentation

ants

Advanced Normalization Tools (ANTs)

atlas-gan

[ICCV 2021] Generative Adversarial Registration for Improved Conditional Deformable Templates

backup_dumu_to_rdm

A pretty simple bash file to archive all data on one old filesystem and place it on another

belong

Scripts for the BeLong study (spine segmentation, brain seg, QSM, DWI, etc)

container_recipes

Container (SIMG,Docker) recipes for a number of projects

deepseacat-deep-learning-for-segmentation-and-characterisation-of-tissue

Deep learning for Segmentation And CharActerisation of Tissue

dicom2nifti

dicom2vid

Just a tool to make DICOM folders into videos for participants etc.

fingertipmappingmnd

Code for MND fingertip mapping, whole body localisation, and behavioural experiments

hackathon2020

Website for the 2020 OHBM Hackathon (Location: 3rd planet from the Sun)

hello-world

this is a description

lashis

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

meshprocessing

Convert binary map to mesh. The binary map is in nifti format and the mesh is in stl file type.

mlmedic

Putting powerful tools in the hand of clinicians

multimodal-connectomes

Multimodal connectomes using MICA-PIPE in MND vs HCs

myelin_mapping_nipype

a nipype implementation of T1/T2 myelin mapping

neurocontainers

The containers can be used in combination with our transparent singularity or neurocommand tool, that wrap the executables inside a container to make them easily available for pipelines

neurodesk.github.io

neurodesktop

The plug-and-play, browser-accessible, containerised data analysis environment.

nifti_normalise

A script to normalise niifti (.nii .nii.gz) images using two PcTs and clamp to 0-100. Requires FSL.

nonlinregimprovessegrel

Non linear registration improves segmentation reliability

optimising_exercise_structural_mri

This is the code repository for the optimising exercise study for structural MRI data (i.e., pre-processing, longitudinal/cross sectional cortical thickness, hippocampus volumetry using LASHiS and ASHS).

pialnet

Repo for the 2020 UQ Summer School of AI Hackathon project: "Segmentation of Magnetic Resonance Angiography data"

raw_mr_to_image

This code allows reconstruction of raw data acquired with SMURF sequence

sct_tutorial_data

Data and scripts for SCT's tutorials and courses

semanticsegmentation

stimfmri

stimmri

Scripts for STIMMRI project

thomshaw92.github.io