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wasserth committed May 31, 2024
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Tool for segmentation of most major anatomical structures in any CT or MR image. It was trained on a wide range of different CT and MR images (different scanners, institutions, protocols,...) and therefore should work well on most images. A large part of the training dataset can be downloaded here: [CT dataset](https://doi.org/10.5281/zenodo.6802613) (1228 subjects) and [MR dataset](https://zenodo.org/doi/10.5281/zenodo.11367004) (298 subjects). You can also try the tool online at [totalsegmentator.com](https://totalsegmentator.com/).

**ANNOUNCEMENT: We recently added support for MR images. Try out by using the task `-ta total_mr` or see more details in our [paper](TODO).**
**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:
![Alt text](resources/imgs/overview_classes_v2.png)
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![Alt text](resources/imgs/overview_classes_mr.png)

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) ([freely available preprint](https://arxiv.org/abs/2208.05868)). If you use it for MR images please cite the [TotalSegmentator MRI paper](TODO). Please also cite [nnUNet](https://github.com/MIC-DKFZ/nnUNet) since TotalSegmentator is heavily based on it.
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.


### Installation
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