Hugging Face's logo

Datasets:
Gipsy666
/
Multi-Modal-Neuroimaging-Segmentation-Dataset

Tasks:
Image Segmentation
Languages:
English
Chinese
Size:
< 1K
Tags:
medical-imaging
neuroimaging
segmentation
brain
mri
ct
Libraries:
Datasets
License:
Dataset card Data Studio Files
xet
 Community
Multi-Modal-Neuroimaging-Segmentation-Dataset / README.md
Gipsy666's picture
Gipsy666
Update README.md
edc4c2b verified
preview code
|
Raw
History Blame Contribute Delete
6.09 kB
metadata 
license: cc-by-4.0
language:
  - en
  - zh
tags:
  - medical-imaging
  - neuroimaging
  - segmentation
  - brain
  - mri
  - ct
task_categories:
  - image-segmentation
size_categories:
  - 1K<n<10K

Multi-Modal Neuroimaging Segmentation Dataset

This comprehensive dataset contains four major categories of neuroimaging segmentation tasks, designed for developing and evaluating deep learning models in medical image analysis. The dataset includes whole brain segmentation, subcortical structure segmentation, stroke and white matter lesion segmentation, and brain tumor segmentation.

Dataset Overview

The dataset encompasses multiple imaging modalities and segmentation tasks with standardized formats and consistent quality control. Each category contains preprocessed images with corresponding segmentation masks from various publicly available datasets.

Category Task Imaging Modality Data Sources File Format
Whole Brain Segmentation Full brain tissue segmentation T1-weighted MRI CANDI, JHU_Full, Mindboggle NIfTI (.nii/.nii.gz)
Subcortical Structure Segmentation Subcortical structures (hippocampus, amygdala, thalamus, etc.) T1-weighted MRI ASHSUMC_Merge, MICCAI2012, cerebrum_data NIfTI (.nii/.nii.gz)
Stroke and White Matter Lesions Lesion detection and segmentation T2/FLAIR MRI ATLAS_2_data, White_Matter NIfTI (.nii/.nii.gz)
Brain Tumor Segmentation Glioma segmentation Multi-modal MRI Brats NIfTI (.nii/.nii.gz)

Data Structure 

Multi-Modal_Neuroimaging_Segmentation_Dataset/
├── Brain Tumor Segmentation/
│   └── Brats/
│       └── BraTS19_TCIA10_241_1/
│           ├── t1.nii.gz
│           ├── t1ce.nii.gz
│           ├── t2.nii.gz
│           ├── flair.nii.gz
│           └── seg.nii.gz
│       └── BraTS19_TCIA10_261_1/
│           ├── t1.nii.gz
│           ├── t1ce.nii.gz
│           ├── t2.nii.gz
│           ├── flair.nii.gz
│           └── seg.nii.gz
│       └── ...
├── Stroke and White Matter Lesions/
│   ├── ATLAS_2_data/
│   │   ├── image/
│   │   │   - sub-r002s001_ses-1.gz
│   │   │   - sub-r002s002_ses-1.gz
│   │   │   - sub-r002s003_ses-1.gz
│   │   │   - sub-r002s004_ses-1.gz
│   │   │   - sub-r002s005_ses-1.gz
│   │   │   - ... 
│   │   └── label/
│   │       - sub-r002s001_ses-1.nii
│   │       - sub-r002s002_ses-1.nii
│   │       - sub-r002s003_ses-1.nii
│   │       - sub-r002s004_ses-1.nii
│   │       - sub-r002s005_ses-1.nii
│   │       - ... 
│   └── White_Matter/
│       ├── image/
│       │   - Utrecht_0.nii.gz
│       │   - Utrecht_11.nii.gz
│       │   - Utrecht_17.nii.gz
│       │   - Utrecht_19.nii.gz
│       │   - Utrecht_2.nii.gz
│       │   - ... 
│       └── label/
│           - Utrecht_0.nii.gz
│           - Utrecht_11.nii.gz
│           - Utrecht_17.nii.gz
│           - Utrecht_19.nii.gz
│           - Utrecht_2.nii.gz
│           - ... 
├── Subcortical Structure Segmentation/
│   ├── ASHSUMC_Merge/
│   │   └── image/
│   │       - ASHSUMC_000.nii.gz
│   │       - ASHSUMC_001.nii.gz
│   │       - ASHSUMC_002.nii.gz
│   │       - ASHSUMC_003.nii.gz
│   │       - ASHSUMC_004.nii.gz
│   │       - ... 
│   ├── MICCAI2012/
│   │   ├── image/
│   │   │   - 1000_3.nii
│   │   │   - 1001_3.nii
│   │   │   - 1002_3.nii
│   │   │   - 1006_3.nii
│   │   │   - 1007_3.nii
│   │   │   - ... 
│   │   └── label/
│   │       - new_1000_3_glm.nii
│   │       - new_1001_3_glm.nii
│   │       - new_1002_3_glm.nii
│   │       - new_1006_3_glm.nii
│   │       - new_1007_3_glm.nii
│   │       - ... 
│   └── cerebrum_data/
│       ├── image/
│       │   - sub-008_ses-001.gz
│       │   - sub-008_ses-002.gz
│       │   - sub-008_ses-003.gz
│       │   - sub-008_ses-004.gz
│       │   - sub-011_ses-001.gz
│       │   - ... 
│       └── label/
│           - sub-008_ses-001.gz
│           - sub-008_ses-002.gz
│           - sub-008_ses-003.gz
│           - sub-008_ses-004.gz
│           - sub-011_ses-001.gz
│           - ... 
└── Whole Brain Segmentation/
    ├── CANDI/
    │   ├── image/
    │   │   - BPDwPsy_065_MR.nii.gz
    │   │   - BPDwPsy_066_MR.nii.gz
    │   │   - BPDwPsy_067_MR.nii.gz
    │   │   - BPDwPsy_068_MR.nii.gz
    │   │   - BPDwPsy_069_MR.nii.gz
    │   │   - ... 
    │   ├── label/
    │   │   - BPDwPsy_065_MR.nii.gz
    │   │   - BPDwPsy_066_MR.nii.gz
    │   │   - BPDwPsy_067_MR.nii.gz
    │   │   - BPDwPsy_068_MR.nii.gz
    │   │   - BPDwPsy_069_MR.nii.gz
    │   │   - ... 
    │   └── dataset.json
    ├── JHU_Full/
    │   ├── image/
    │   │   - Adt27-55_01_Adt27-55_01.nii.gz
    │   │   - Adt27-55_02_Adt27-55_02.nii.gz
    │   │   - Adt27-55_03_Adt27-55_03.nii.gz
    │   │   - Adt27-55_04_Adt27-55_04.nii.gz
    │   │   - Adt27-55_05_Adt27-55_05.nii.gz
    │   │   - ... 
    │   └── label/
    │       - Adt27-55_01_Adt27-55_01.nii.gz
    │       - Adt27-55_02_Adt27-55_02.nii.gz
    │       - Adt27-55_03_Adt27-55_03.nii.gz
    │       - Adt27-55_04_Adt27-55_04.nii.gz
    │       - Adt27-55_05_Adt27-55_05.nii.gz
    │       - ... 
    └── Mindboggle/
        ├── image/
        │   - Afterthought-1.gz
        │   - HLN-12-1.gz
        │   - HLN-12-10.gz
        │   - HLN-12-11.gz
        │   - HLN-12-12.gz
        │   - ... 
        └── label/
            - Afterthought-1.gz
            - HLN-12-1.gz
            - HLN-12-10.gz
            - HLN-12-11.gz
            - HLN-12-12.gz
            - ...