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Duplicate from Pakawat-Phasook/ClinFuseDiff-APIS-Data
Browse filesCo-authored-by: Pakawat Phasook <Pakawat-Phasook@users.noreply.huggingface.co>
This view is limited to 50 files because it contains too many changes. See raw diff
- .gitattributes +59 -0
- README.md +83 -0
- preproc/train_000/bone_mask.nii.gz +3 -0
- preproc/train_000/brain_mask.nii.gz +3 -0
- preproc/train_000/ct.nii.gz +3 -0
- preproc/train_000/lesion_mask.nii.gz +3 -0
- preproc/train_000/mri.nii.gz +3 -0
- preproc/train_001/bone_mask.nii.gz +3 -0
- preproc/train_001/brain_mask.nii.gz +3 -0
- preproc/train_001/ct.nii.gz +3 -0
- preproc/train_001/lesion_mask.nii.gz +3 -0
- preproc/train_001/mri.nii.gz +3 -0
- preproc/train_002/bone_mask.nii.gz +3 -0
- preproc/train_002/brain_mask.nii.gz +3 -0
- preproc/train_002/ct.nii.gz +3 -0
- preproc/train_002/lesion_mask.nii.gz +3 -0
- preproc/train_002/mri.nii.gz +3 -0
- preproc/train_003/bone_mask.nii.gz +3 -0
- preproc/train_003/brain_mask.nii.gz +3 -0
- preproc/train_003/ct.nii.gz +3 -0
- preproc/train_003/lesion_mask.nii.gz +3 -0
- preproc/train_003/mri.nii.gz +3 -0
- preproc/train_004/bone_mask.nii.gz +3 -0
- preproc/train_004/brain_mask.nii.gz +3 -0
- preproc/train_004/ct.nii.gz +3 -0
- preproc/train_004/lesion_mask.nii.gz +3 -0
- preproc/train_004/mri.nii.gz +3 -0
- preproc/train_005/bone_mask.nii.gz +3 -0
- preproc/train_005/brain_mask.nii.gz +3 -0
- preproc/train_005/ct.nii.gz +3 -0
- preproc/train_005/lesion_mask.nii.gz +3 -0
- preproc/train_005/mri.nii.gz +3 -0
- preproc/train_006/bone_mask.nii.gz +3 -0
- preproc/train_006/brain_mask.nii.gz +3 -0
- preproc/train_006/ct.nii.gz +3 -0
- preproc/train_006/lesion_mask.nii.gz +3 -0
- preproc/train_006/mri.nii.gz +3 -0
- preproc/train_007/bone_mask.nii.gz +3 -0
- preproc/train_007/brain_mask.nii.gz +3 -0
- preproc/train_007/ct.nii.gz +3 -0
- preproc/train_007/lesion_mask.nii.gz +3 -0
- preproc/train_007/mri.nii.gz +3 -0
- preproc/train_008/bone_mask.nii.gz +3 -0
- preproc/train_008/brain_mask.nii.gz +3 -0
- preproc/train_008/ct.nii.gz +3 -0
- preproc/train_008/lesion_mask.nii.gz +3 -0
- preproc/train_008/mri.nii.gz +3 -0
- preproc/train_009/bone_mask.nii.gz +3 -0
- preproc/train_009/brain_mask.nii.gz +3 -0
- preproc/train_009/ct.nii.gz +3 -0
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README.md
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---
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license: cc-by-4.0
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task_categories:
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- image-segmentation
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- image-to-image
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tags:
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- medical
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- neuroimaging
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- stroke
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- image-fusion
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pretty_name: APIS Stroke Dataset (Lesion Cases Only)
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size_categories:
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- n<1K
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---
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# APIS Stroke Dataset - Preprocessed (Lesion Cases Only)
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This dataset contains **54 acute ischemic stroke cases** with expert lesion annotations from the APIS dataset.
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## Dataset Structure
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```
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preproc/
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train_000/
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ct.nii.gz # CT scan
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mri.nii.gz # Registered MRI (ADC)
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brain_mask.nii.gz # Brain ROI mask (TotalSegmentator)
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bone_mask.nii.gz # Bone/skull ROI mask (TotalSegmentator)
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lesion_mask.nii.gz # Expert-annotated lesion segmentation
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train_001/
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...
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(54 cases total)
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splits/
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train.txt # 37 cases (68.5%)
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val.txt # 8 cases (14.8%)
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test.txt # 9 cases (16.7%)
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split_metadata.json # Split statistics
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```
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## Excluded Cases
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6 cases without lesions were excluded:
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- train_027, train_038, train_048, train_051, train_058, train_059
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## Usage
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```python
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from pathlib import Path
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import nibabel as nib
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# Download dataset
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from huggingface_hub import snapshot_download
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data_dir = snapshot_download(repo_id="Pakawat-Phasook/ClinFuseDiff-APIS-Data", repo_type="dataset")
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# Load a case
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case_dir = Path(data_dir) / "preproc" / "train_000"
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ct = nib.load(case_dir / "ct.nii.gz")
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mri = nib.load(case_dir / "mri.nii.gz")
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lesion_mask = nib.load(case_dir / "lesion_mask.nii.gz")
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```
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## Citation
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```bibtex
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@article{li2023apis,
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title={APIS: A paired CT-MRI dataset with lesion labels for acute ischemic stroke},
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author={Li, Zongwei and others},
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journal={Scientific Data},
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year={2023}
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}
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```
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## Preprocessing
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- **Registration**: MRI (ADC) registered to CT using ANTs SyN
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- **ROI Masks**: Generated using TotalSegmentator v2
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- **Normalization**: CT windowed to brain (C=40, W=400 HU)
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- **Format**: NIfTI (.nii.gz), isotropic 1mm spacing
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## License
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CC-BY-4.0 (original APIS dataset license)
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