Repositories list

• model-spinal-rootlets

  Public
  Deep-learning based segmentation of the spinal nerve rootlets

  Python

  •2•8•28•3•Updated Jul 31, 2025Jul 31, 2025

• model_seg_sci

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

  Python

  •

  MIT License

  •2•17•7•1•Updated Jul 30, 2025Jul 30, 2025

• ms-lesion-agnostic

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

  Python

  •

  MIT License

  •0•6•31•9•Updated Jul 28, 2025Jul 28, 2025

• model_seg_sc-gm-lesion_human_ms_exvivo_t2star

  Public
  Model to segment WM, GM and MS lesions on 0.075mm isotropic GRE magnitude + phase ex vivo human samples from NIH.

  Python

  •

  MIT License

  •2•1•15•0•Updated Jul 25, 2025Jul 25, 2025

• ms-multi-spine-challenge-2024

  Public
  Deep learning models for the MS-Multi-Spine challenge 2024

  Python

  •0•2•2•0•Updated Jul 21, 2025Jul 21, 2025

• lumbar_seg_EPFL

  Public
  Model repository for lumbar segmentation from EPFL data

  Shell

  •

  MIT License

  •0•1•3•0•Updated Jul 10, 2025Jul 10, 2025

• model_seg_mouse-sc_wm-gm_t1

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

  mrisegmentationgray-matter+ 2white-matterspinal-cord

  Python

  •

  MIT License

  •1•2•15•2•Updated Jun 23, 2025Jun 23, 2025

• utilities

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

  nn-unet

  Python

  •

  MIT License

  •0•9•12•4•Updated Jun 10, 2025Jun 10, 2025

• ivadomed

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

  Python

  •

  MIT License

  •147•162•259•43•Updated May 15, 2025May 15, 2025

• model-gm-contrast-region-agnostic

  Public
  Python

  •

  MIT License

  •0•0•9•0•Updated Apr 29, 2025Apr 29, 2025

• model_seg_ms_mp2rage

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

  model-ivadomed

  Jupyter Notebook

  •

  MIT License

  •0•2•24•0•Updated Apr 29, 2025Apr 29, 2025

• model_seg_gm-wm_t2star_7t_unet2d-multiclass

  Public
  A deep learning model that allows robust SC/GM multi-class segmentation based on ultra-high resolution 7T T2*-w MR images

  spinal-cordgray-matter-segmentationwhite-matter-segmentation+ 57tdeep-learningmedical-imagingsegmentationconvolutional-neural-networks

  0•3•1•0•Updated Apr 29, 2025Apr 29, 2025

• model-seg-ms-axial-t2w

  Public
  Deep-learning based segmentation of the spinal cord lesion project

  Python

  •

  MIT License

  •2•1•1•1•Updated Apr 4, 2025Apr 4, 2025

• counterfactual-synthesis-lesion

  Public
  Jupyter Notebook

  •1•1•3•0•Updated Feb 17, 2025Feb 17, 2025

• MetricsReloaded

  Public
  A fork of the Project-MONAI/MetricsReloaded repo

  Python

  •

  Apache License 2.0

  •10•5•5•2•Updated Jan 28, 2025Jan 28, 2025

• model-canal-seg

  Public
  Python

  •

  MIT License

  •0•0•10•0•Updated Dec 14, 2024Dec 14, 2024

• lumbar-T2star-GMseg

  Public
  Python

  •0•0•3•0•Updated Dec 5, 2024Dec 5, 2024

• canproco

  Public
  Code for preprocessing the CanProCo brain and spinal cord dataset

  Jupyter Notebook

  •

  MIT License

  •1•4•37•2•Updated Nov 28, 2024Nov 28, 2024

• Bidsification

  Public
  0•1•3•0•Updated Jul 9, 2024Jul 9, 2024

• model_seg_exvivo_gm-wm_t2_unet2d-multichannel-softseg

  Public
  Grey and white matters segmentation on exvivo T2 human data.

  0•0•6•0•Updated Apr 24, 2024Apr 24, 2024

• model-seg-dcm

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

  Shell

  •

  MIT License

  •0•3•8•4•Updated Apr 12, 2024Apr 12, 2024

• data-testing

  Public
  Light-weighted data for testing/tutorial

  1•1•4•1•Updated Jan 30, 2024Jan 30, 2024

• t2star_sc

  Public
  0•0•0•0•Updated Oct 4, 2023Oct 4, 2023

• multimodal-registration

  Public
  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.

  Python

  •2•11•1•3•Updated Sep 5, 2023Sep 5, 2023

• anima-bin

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

  Python

  •

  Other

  •1•0•0•0•Updated Jul 11, 2023Jul 11, 2023

• microscopy-segmentation-monai

  Public
  Axon and myelin segmentation of SEM images

  axonmyelinhistology+ 2segmentation-modelsmodel-monai

  Jupyter Notebook

  •0•1•2•0•Updated Apr 1, 2023Apr 1, 2023

• model_sc_centerline

  Public
  Repository for automated spinal cord centerline detection using deep learning

  MIT License

  •0•2•5•1•Updated Feb 9, 2023Feb 9, 2023

• model_seg_csf_epi

  Public
  Model repository for spinal cord csf segmentation on EPI data

  Python

  •0•2•1•2•Updated Jan 6, 2023Jan 6, 2023

• mice_uqueensland_gm

  Public
  1•0•0•0•Updated Dec 6, 2022Dec 6, 2022

• mice_uqueensland_sc

  Public
  0•0•1•0•Updated Dec 5, 2022Dec 5, 2022