TCGA-mini

TCGA-mini is a curated whole-slide imaging (WSI) dataset composed of TCGA .svs pathology slides.

• Number of slides: 1319 (.svs)
• Location in repo: slides/
• Storage footprint on the Hub: about 1.42 TiB (1450.94 GiB, Git LFS-backed)

Dataset structure

TCGA-mini/
├── README.md
└── slides/
    ├── TCGA-xxxx-xxxx-xxZ-00-DX1.svs
    └── ...

Data format

• File type: Aperio whole-slide image files (.svs)
• Naming: Original TCGA-style slide identifiers are preserved
• Labels/annotations: Not included in this repo

Download

Download all slides:

hf download W8Yi/TCGA-mini \
  --repo-type dataset \
  --include "slides/*.svs" \
  --local-dir ./TCGA-mini

Download a single slide:

hf download W8Yi/TCGA-mini \
  --repo-type dataset \
  --include "slides/TCGA-06-0743-01Z-00-DX1.svs" \
  --local-dir ./TCGA-mini

Quick usage example (OpenSlide)

from openslide import OpenSlide

slide = OpenSlide("TCGA-mini/slides/TCGA-06-0743-01Z-00-DX1.svs")
print("levels:", slide.level_count)
print("dimensions:", slide.dimensions)

Intended use

This dataset is intended for research and educational use in computational pathology and WSI pipelines. It is not intended for clinical diagnosis or direct patient care.

Source and attribution

Slides originate from The Cancer Genome Atlas (TCGA) program. Users are responsible for complying with all applicable TCGA/GDC data-use and publication policies.

Limitations

• No train/val/test split is provided
• No labels or clinical tables are included in this repo
• Whole-slide files are very large and require substantial storage and I/O throughput

Citation

If you use this dataset, please cite:

1. This Hugging Face dataset repository: W8Yi/TCGA-mini
2. The TCGA program and relevant data source publications