YongchengYAO/AFIDs-Lite

About

This is a preprocessed redistribution of AFIDs (OpenNeuro ds004470 + ds004471), which is released under the CC BY 4.0 license.

Dataset summary: 72 T1-weighted brain MR scans with 32 anatomical fiducial (AFID) landmarks each.

Contents of this repository:

• Images/ — 72 files

📝 Landmark annotations, visualization figures and the benchmark plan files live in 🔥MedVision🔥, where you can load the complete images and annotations from dataset configs.

Relation to the source dataset

In the source	72 T1-weighted MR scans (32 SNSX + 40 LHSCPD), 32 anatomical fiducials each
Excluded here	nothing — this is a complete mirror
In this repo	72 Images

Why -Lite? The suffix marks this as a derived redistribution rather than a copy of the source. These are preprocessed volumes — every case has been format-converted, geometry-normalised and reoriented to RAS+ — and for some sources cases or modalities are excluded as well (see the table above). Use it to reproduce MedVision, not as a substitute for the original release. See Preprocessing below for exactly what was changed.

Preprocessing

• Images converted to 3D volumes in nii.gz format and standardized to RAS+ orientation.

• The 32 ground-truth fiducials per case were parsed from the .fcsv files (# CoordinateSystem = 0, i.e. RAS world-mm) and converted to 0-based voxel indices in the RAS+ volume, then saved as JSON.

• One T1w volume is kept per subject (32 SNSX + 40 LHSCPD = 72 cases).

Landmarks

landmarks_map = {
    "P1": "anterior commissure",
    "P2": "posterior commissure",
    "P3": "infracollicular sulcus",
    "P4": "pontomesencephalic junction",
    "P5": "superior interpeduncular fossa",
    "P6": "right superior lateral mesencephalic sulcus",
    "P7": "left superior lateral mesencephalic sulcus",
    "P8": "right inferior lateral mesencephalic sulcus",
    "P9": "left inferior lateral mesencephalic sulcus",
    "P10": "culmen",
    "P11": "intermammillary sulcus",
    "P12": "right mammillary body",
    "P13": "left mammillary body",
    "P14": "pineal gland",
    "P15": "right lateral ventricle at anterior commissure",
    "P16": "left lateral ventricle at anterior commissure",
    "P17": "right lateral ventricle at posterior commissure",
    "P18": "left lateral ventricle at posterior commissure",
    "P19": "genu of the corpus callosum",
    "P20": "splenium of the corpus callosum",
    "P21": "right anterolateral temporal horn",
    "P22": "left anterolateral temporal horn",
    "P23": "right superior anteromedial temporal horn",
    "P24": "left superior anteromedial temporal horn",
    "P25": "right inferior anteromedial temporal horn",
    "P26": "left inferior anteromedial temporal horn",
    "P27": "right indusium griseum origin",
    "P28": "left indusium griseum origin",
    "P29": "right ventral occipital horn",
    "P30": "left ventral occipital horn",
    "P31": "right olfactory sulcal fundus",
    "P32": "left olfactory sulcal fundus"
}

News

• [25 Jul, 2026] Initial release. This dataset is integrated into 🔥MedVision🔥, where you can use these config names to load data in python:

  • AFIDs_BiometricsFromLandmarks_Task01_Axial_Test
  • AFIDs_BiometricsFromLandmarks_Task01_Axial_Train
  • AFIDs_BiometricsFromLandmarks_Task01_Sagittal_Test
  • AFIDs_BiometricsFromLandmarks_Task01_Sagittal_Train

Data Usage Agreement

By using the dataset, you agree to the terms as follow.

• You must comply with the original CC BY 4.0 license terms of the source dataset.
• You are recommended to refer to the source of this dataset in any publication: https://huggingface.co/datasets/YongchengYAO/AFIDs-Lite
• You must cite the original publication(s):
  • https://doi.org/10.1038/s41597-024-04259-z

Official Release

For more information, please go to the official site: https://github.com/afids/afids-data

Download from Huggingface

# python
from huggingface_hub import snapshot_download
snapshot_download(repo_id="YongchengYAO/AFIDs-Lite", repo_type='dataset', local_dir="/your/local/folder")