What's Changed
- Evaluation of existing SCT methods by @plbenveniste in #35
- nnUNet training and evaluation by @plbenveniste in #36
- Dataset aggregation by @plbenveniste in #37
New Contributors
- @plbenveniste made their first contribution in #35
Full Changelog: https://github.com/ivadomed/ms-lesion-agnostic/commits/r20241101
Content
This release contains the code, the data used and the model for the ACTRIMS 2025 abstract submission.
The datasets versions are the following:
- basel-mp2rage:
commit ddd0d555854d3b2cac205583298addc8f0b45ac2 - canproco:
commit 248be65fda551479ce0d3f9f644188cfca1248f0 - ms-basel-2020:
commit 92ec31c142bc01cc37957742fcf318d55b7ef80d - nih-ms-mp2rage:
commit 8187361e4f5143ffc6c8d93750a34a57e424a3a8 - umass-ms-ge-excite1.5:
commit 18125775b55a21aac1ee8fcb0cc60cd1622e5349 - umass-ms-ge-pioneer3:
commit 89cf98a82f951c96cd9517cc5e201a36be490dfd - bavaria-quebec-spine-ms-unstitched:
commit 3e0819435f5b99ddad70aee6c50fdc0db035434b - ms-basel-2018:
commit cfddb0ed1aee701ef512631edb6016bcc29ef47b - ms-nmo-beijing:
commit ac134315b48cb9efcb72cd276bbceeb286103442 - sct-testing-large:
commit c26a5d690e2ced34bd5dea61cab66a7cb0eaebed - umass-ms-ge-hdxt1.5:
commit 503f28b65b0d3cdbb99f790daec4a976b35c0ffc - umass-ms-siemens-espree1.5:
commit ab24170b5a0e1fbbb63d5631d1a7052ad0197982
The dataset split for training/testing the model can be found in the file dataset_2024-07-24_seed42_lesionOnly.json.
The model is attached below: it is a 3D nnUNet trained with the ResEnc planner.
The model was trained on RPI images. For inference purposes, the dataset.json file was modified to add "image_orientation": "RPI".
Contributors
plbenveniste