Angelou0516/amos22-mri-dataset

AMOS22 MRI Dataset

Dataset Description

This is the MRI portion of the AMOS22 (A large-scale abdominal multi-organ benchmark for versatile medical image segmentation) dataset.

The AMOS22 dataset contains abdominal MRI scans with dense segmentation annotations for 15 organs.

Dataset Structure

dict_keys(['train', 'valid']) splits:

train/
├── imagesTr/         # MRI scan images in NIfTI format (.nii.gz)
└── labelsTr/         # Segmentation masks in NIfTI format (.nii.gz)

valid/
├── imagesVa/         # MRI scan images in NIfTI format (.nii.gz)
└── labelsVa/         # Segmentation masks in NIfTI format (.nii.gz)

Labels

The dataset includes segmentation masks for 15 abdominal organs:

• Spleen
• Right Kidney & Left Kidney
• Gallbladder
• Esophagus
• Liver
• Stomach
• Aorta
• Inferior Vena Cava (IVC)
• Pancreas
• Right Adrenal Gland & Left Adrenal Gland
• Duodenum
• Urinary Bladder

Data Format

• Modality: MRI
• Images: NIfTI format (.nii.gz)
• Masks: NIfTI format (.nii.gz)

JSONL Format

Each line in the JSONL file contains:

{
  "image": "path/to/image.nii.gz",
  "mask": "path/to/mask.nii.gz",
  "label": ["organ1", "organ2", ...],
  "modality": "MRI",
  "dataset": "AMOS22_MRI",
  "official_split": "train" or "valid",
  "patient_id": "patient_id"
}

Usage

from datasets import load_dataset

# Load the dataset
ds = load_dataset("Angelou0516/amos22-mri-dataset")

# Access train and validation splits
train_ds = ds['train']
val_ds = ds['valid']

Citation

If you use this dataset, please cite the AMOS22 challenge:

@article{ji2022amos,
  title={AMOS: A large-scale abdominal multi-organ benchmark for versatile medical image segmentation},
  author={Ji, Yuanfeng and Bai, Haotian and Yang, Jie and Ge, Chongjian and Zhu, Ye and Zhang, Ruimao and Li, Zhen and Zhang, Lingyan and Ma, Wanling and Wan, Xiang and others},
  journal={arXiv preprint arXiv:2206.08023},
  year={2022}
}

License

CC-BY-4.0

Dataset Homepage

https://amos22.grand-challenge.org/