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Minor Additions to SSL SwinUNETR tutorial (#1485)
Additional reference text changes to README ### Checks <!--- Put an `x` in all the boxes that apply, and remove the not applicable items --> - [x] Avoid including large-size files in the PR. - [x] Clean up long text outputs from code cells in the notebook. - [x] For security purposes, please check the contents and remove any sensitive info such as user names and private key. - [x] Ensure (1) hyperlinks and markdown anchors are working (2) use relative paths for tutorial repo files (3) put figure and graphs in the `./figure` folder Signed-off-by: Vishwesh Nath <[email protected]>
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self_supervised_pretraining/swinunetr_pretrained/README.md

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| Colonography Trials | TCIA | ~1600 |
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| Head and Neck Carcinoma | TCIA | ~1300 |
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Fine-tuning Dataset: The dataset from Beyond the Cranial Vault Challenge
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[(BTCV)](https://www.synapse.org/#!Synapse:syn3193805/wiki/217789)
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2015 hosted at MICCAI, was used as a fully supervised fine-tuning task on the pre-trained weights. The dataset
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If you found the tutorial to be helpful in your work please support us by citing the below reference:
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1.) Tang, Yucheng, Dong Yang, Wenqi Li, Holger R. Roth, Bennett Landman, Daguang Xu, Vishwesh Nath, and Ali Hatamizadeh. "Self-supervised pre-training of swin transformers for 3d medical image analysis." In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition, pp. 20730-20740. 2022.
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1.) Valanarasu JM, Tang Y, Yang D, Xu Z, Zhao C, Li W, Patel VM, Landman B, Xu D, He Y, Nath V. Disruptive Autoencoders: Leveraging Low-level features for 3D Medical Image Pre-training. arXiv preprint arXiv:2307.16896. 2023 Jul 31.
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Bibtex: `@article{valanarasu2023disruptive,
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title={Disruptive Autoencoders: Leveraging Low-level features for 3D Medical Image Pre-training},
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author={Valanarasu, Jeya Maria Jose and Tang, Yucheng and Yang, Dong and Xu, Ziyue and Zhao, Can and Li, Wenqi and Patel, Vishal M and Landman, Bennett and Xu, Daguang and He, Yufan and others},
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journal={arXiv preprint arXiv:2307.16896},
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year={2023}
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}
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`
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2.) Tang, Y., Yang, D., Li, W., Roth, H.R., Landman, B., Xu, D., Nath, V. and Hatamizadeh, A., 2022. Self-supervised pre-training of swin transformers for 3d medical image analysis. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (pp. 20730-20740).
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Bibtex: `@inproceedings{tang2022self,
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title={Self-supervised pre-training of swin transformers for 3d medical image analysis},
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}
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`
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2.) Tang, Yucheng, et al. "High-resolution 3D abdominal segmentation with random patch network fusion."
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Medical Image Analysis 69 (2021): 101894.
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3.) Tang, Y., Gao, R., Lee, H.H., Han, S., Chen, Y., Gao, D., Nath, V., Bermudez, C., Savona, M.R., Abramson, R.G. and Bao, S., 2021. High-resolution 3D abdominal segmentation with random patch network fusion. Medical image analysis, 69, p.101894.
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Bibtex: `@article{tang2021high,
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title={High-resolution 3D abdominal segmentation with random patch network fusion},
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author={Tang, Yucheng and Gao, Riqiang and Lee, Ho Hin and Han, Shizhong and Chen, Yunqiang and Gao, Dashan and Nath, Vishwesh and Bermudez, Camilo and Savona, Michael R and Abramson, Richard G and others},
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journal={Medical image analysis},
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volume={69},
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pages={101894},
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year={2021},
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publisher={Elsevier}
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}
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`

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