autoencodix/pancreas-fang

Info

Human single-cell RNA-seq data from Baron et al. (2016), "A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas" (GEO accession GSE84133), for use with the AUTOENCODIX Maskix tutorial.

This is the same dataset used by Fang et al. (2024).

Contents

• 8569 cells × 20125 genes, human pancreas, 4 donors (human1–human4).
• obs: barcode, assigned_cluster (14 cell types: beta, alpha, ductal, acinar, delta, activated_stellate, gamma, endothelial, quiescent_stellate, macrophage, mast, epsilon, schwann, t_cell), sample_id (donor).
• Single file: pancreas.h5ad (AnnData format, load with anndata.read_h5ad / scanpy.read_h5ad).

Loading

from huggingface_hub import hf_hub_download
import anndata as ad

path = hf_hub_download(repo_id="autoencodix/pancreas-fang", repo_type="dataset", filename="pancreas.h5ad")
adata = ad.read_h5ad(path)

License

No formal license is attached to this data. NCBI GEO states that it places no restrictions on the use or distribution of data deposited in GEO, though individual submitters may in principle retain rights to their contribution. Please cite Baron et al. (2016) when using this dataset.