ivadomed

ivadomed

Repository on the collaborative IVADO medical imaging project between the Mila and NeuroPoly labs.

model_seg_sci

Deep-learning based segmentation of the spinal cord and lesions in traumatic SCI

ms-challenge-2021

MS segmentation challenge

multimodal-registration

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.

utilities

Repository containing utility scripts for handling various aspects in a DL model training pipeline

canproco

Code for preprocessing the CanProCo brain and spinal cord dataset

model-spinal-rootlets

Deep-learning based segmentation of the spinal nerve rootlets

model-seg-dcm

Segmentation of lesions on MRI scans in patients with Degenerative Cervical Myelopathy (DCM)

ms-lesion-agnostic

Deep Learning contrasts "agnostic" tool for MS lesion segmentation in the spinal cord

MetricsReloaded

A fork of the Project-MONAI/MetricsReloaded repo

model_sc_centerline

Repository for automated spinal cord centerline detection using deep learning

model_seg_csf_epi

Model repository for spinal cord csf segmentation on EPI data

model_seg_mouse-sc_wm-gm_t1

White and grey matter segmentation on T1-weighted exvivo mouse spinal cord

Bidsification

Counterfactual_synthesis_for_lesion_segmentation

data-testing

Light-weighted data for testing/tutorial

model_seg_ms_mp2rage

Model repository for MS lesion segmentation on MP2RAGE data from University of Basel

anima-bin

pip version of https://anima.readthedocs.io

brainstorm3

Brainstorm software: MEG, EEG, fNIRS, ECoG, sEEG and electrophysiology

federated-learning

lumbar-T2star-GMseg

lumbar_seg_EPFL

Model repository for lumbar segmentation from EPFL data

MEEG-Brainstorm

Repository for training MEEG datasets with the ivadomed framework in Brainstorm

mice_uqueensland_gm

mice_uqueensland_sc

microscopy-segmentation-monai

Axon and myelin segmentation of SEM images

model-csf-seg

model_seg_exvivo_gm-wm_t2_unet2d-multichannel-softseg

Grey and white matters segmentation on exvivo T2 human data.

pybids

Python tools for querying and manipulating BIDS datasets.

t2star_sc