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add link to task finder to readme
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wasserth committed Jul 10, 2024
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Expand Up @@ -4,12 +4,14 @@ Tool for segmentation of most major anatomical structures in any CT or MR image.

**ANNOUNCEMENT: We recently added support for MR images. Try out by using the task `-ta total_mr` or see more details in our [paper](https://arxiv.org/abs/2405.19492).**

Supported classes for CT:
Main classes for CT:
![Alt text](resources/imgs/overview_classes_v2.png)

Supported classes for MR:
Main classes for MR:
![Alt text](resources/imgs/overview_classes_mr.png)

See [here](https://backend.totalsegmentator.com/find-task/) for all available structures.

Created by the department of [Research and Analysis at University Hospital Basel](https://www.unispital-basel.ch/en/radiologie-nuklearmedizin/forschung-radiologie-nuklearmedizin).
If you use it please cite our [Radiology AI paper](https://pubs.rsna.org/doi/10.1148/ryai.230024) ([free preprint](https://arxiv.org/abs/2208.05868)). If you use it for MR images please cite the [TotalSegmentator MRI paper](https://arxiv.org/abs/2405.19492). Please also cite [nnUNet](https://github.com/MIC-DKFZ/nnUNet) since TotalSegmentator is heavily based on it.

Expand Down Expand Up @@ -84,6 +86,8 @@ Usage:
TotalSegmentator -i ct.nii.gz -o segmentations -ta <task_name>
```

Confused by all the structures and tasks? Check [this](https://backend.totalsegmentator.com/find-task/) to search through available structures and tasks.

The mapping from label ID to class name can be found [here](https://github.com/wasserth/TotalSegmentator/blob/master/totalsegmentator/map_to_binary.py).


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