ProbioticFarmer/mindboggle-101-brains

Mindboggle-101 — 101 Manually Labeled Human Brain MRI Volumes, Surfaces, Templates & Atlases

Complete anatomical ground-truth dataset from Mindboggle-101 (Klein & Tourville, 2012, CC-BY 4.0), comprising 103 manually curated human brains across test-retest and multi-site cohorts (OASIS-TRT-20, MMRR-21, NKI-TRT-20, NKI-RS-22, HLN-12, Colin27-1, Afterthought-1, Twins-2, MMRR-3T7T-2).

Companion Lab-Processed Pipeline Datasets on Hugging Face

• Core Brains & Manual Gold-Standard Labels (this repo): ProbioticFarmer/mindboggle-101-brains
• ANTs (antsCorticalThickness / SyN warps & Atropos posteriors): ProbioticFarmer/mindboggle-101-ants
• FreeSurfer (recon-all volumes, surfaces & parcellation stats): ProbioticFarmer/mindboggle-101-freesurfer

Repository Layout

• volumes/ — T1-weighted MRI volumes, brain-extracted T1w, manually edited DKT31 cortical & subcortical label NIfTIs (native & MNI152 space).
• surfaces/ — Cortical surface VTK meshes with manual anatomical parcellations.
• templates/ & atlases/ — OASIS-30 Atropos priors/templates and MNI152 multi-atlas joint-fusion parcellations.
• archives/ShapeTables_mindboggle_20141017.tar.gz — Complete vertex/label morphometric shape feature tables (cortical thickness, travel depth, geodesic depth, curvature, area).
• metadata/subjects.parquet — Structured 101-subject manifest indexing cohorts, test-retest flags, and exact repo-relative NIfTI/VTK paths.

Fast Usage on Hugging Face Jobs

from huggingface_hub import snapshot_download
import pandas as pd
import nibabel as nib

root = snapshot_download(
    repo_id="ProbioticFarmer/mindboggle-101-brains",
    repo_type="dataset",
    allow_patterns=["metadata/*", "volumes/*", "templates/*", "atlases/*"],
)
subjects = pd.read_parquet(f"{root}/metadata/subjects.parquet")

Citation

Klein, A., & Tourville, J. (2012). 101 labeled brain images and a consistent human cortical labeling protocol. Frontiers in Neuroscience, 6, 171. https://doi.org/10.3389/fnins.2012.00171