##  Dataset: **OAIZIB-CM**

| Source       | link                                                         |
| ------------ | ------------------------------------------------------------ |
| Google Drive | [here](https://drive.google.com/drive/folders/13_afAKSH7ZMOI_Nk2gfoihbJKwafw1l9?usp=share_link) |
| Huggingface  | [here](https://huggingface.co/datasets/YongchengYAO/OAIZIB-CM/tree/main) |

If you use our preprocessed data, please note that the manual segmentation annotations come from this work: 

- Automated Segmentation of Knee Bone and Cartilage combining Statistical Shape Knowledge and Convolutional Neural Networks: Data from the Osteoarthritis Initiative (https://doi.org/10.1016/j.media.2018.11.009)

<br/><br/>

## Download from Huggingface

```bash
#!/bin/bash
pip install huggingface-hub[cli]
huggingface-cli login --token $HF_TOKEN
```

```python
# python

from huggingface_hub import snapshot_download
snapshot_download(repo_id="YongchengYAO/OAIZIB-CM", repo_type='dataset', local_dir="/your/local/folder")
```

<br/><br/>

## Files

### Images & Labels

- imagesTr: training images (#404)
- labelsTr: training segmentation masks (#404) 
- imagesTs: testing images (#103)
- labelsTs: testing segmentation masks (#103) 

### Data Split & Info

- `subInfo_train.xlsx`: list of training data
- `subInfo_test.xlsx`: list of testing data
- `kneeSideInfo.csv`: a file containing knee side information, used in CartiMorph Toolbox

<br/><br/>

## Paper

```
@article{YAO2024103035,
title = {CartiMorph: A framework for automated knee articular cartilage morphometrics},
journal = {Medical Image Analysis},
author = {Yongcheng Yao and Junru Zhong and Liping Zhang and Sheheryar Khan and Weitian Chen},
volume = {91},
pages = {103035},
year = {2024},
issn = {1361-8415},
doi = {https://doi.org/10.1016/j.media.2023.103035}
}
```

```
@misc{yao2024quantifyingkneecartilageshape,
      title={Quantifying Knee Cartilage Shape and Lesion: From Image to Metrics}, 
      author={Yongcheng Yao and Weitian Chen},
      year={2024},
      eprint={2409.07361},
      archivePrefix={arXiv},
      primaryClass={eess.IV},
      url={https://arxiv.org/abs/2409.07361}, 
}
```