ivadomed / ivadomed/model-spinal-rootlets

Testing cervical model on `dcm-brno` dataset

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#60 1 comment 2 reactions 0 assignees View on GitHub
contrast: T2star strength: 3T
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Python
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Description

This issue describes the application of the [r20240523](https://github.com/ivadomed/model-spinal-rootlets/releases/tag/r20240523) model (for dorsal and ventral rootlets) on T2*w axial images (0.35 x 0.35 x 2.5mm) of C spine from the `dcm-brno` dataset (to be shared soon - [#326](https://github.com/neuropoly/data-management/issues/326)). The model has been tested on a few subjects from this dataset.

Here are examples of its use on a healthy subject and a subject with compression:

### Example of healthy subject:
- In this subject, the model segmented the rootlets quite well, but the spinal level order doesn't match - see below:

![image](https://github.com/ivadomed/model-spinal-rootlets/assets/78610729/13c61efb-862d-4946-ba33-e669ad8a4121)

### Example of a subject with compression:
- In this subject, the model does not preform well (spinal level does not match) - see below:

![image](https://github.com/ivadomed/model-spinal-rootlets/assets/78610729/e81a36e8-962b-408b-829d-b7f40a4f4e9e)

Contributor guide

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Research direction

Start by reviewing the r20240523 model results described for healthy and compressed subjects, then obtain the dcm-brno dataset referenced in #326. Compare segmentation quality and spinal-level ordering across the reported cases; done means documenting whether the observed mismatches are reproducible and what follow-up is needed.

Written by the indexing model from the issue text.

Assessment

Tech stack
python
Domain
machine-learning
Issue type
Bug
Difficulty
4/5
Estimated time
3-5 days
Activity status
Stale
Clarity
Needs clarification
Newbie friendliness
25/100

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