scanpy.datasets.pbmc68k_reduced

scanpy.datasets.pbmc68k_reduced()

Subsampled and processed 68k PBMCs.

10x PBMC 68k dataset from https://support.10xgenomics.com/single-cell-gene-expression/datasets

The original PBMC 68k dataset was preprocessed using scanpy and was saved keeping only 724 cells and 221 highly variable genes.

The saved file contains the annotation of cell types (key: ‘bulk_labels’), UMAP coordinates, louvain clustering and gene rankings based on the bulk_labels.

Returns:adata – Annotated data matrix.
Return type:AnnData