lamindb.core.datasets.anndata_pbmc68k_reduced¶
- lamindb.core.datasets.anndata_pbmc68k_reduced()¶
Modified from scanpy.collections.pbmc68k_reduced().
This code was run:
pbmc68k = sc.collections.pbmc68k_reduced() pbmc68k.obs.rename(columns={"bulk_labels": "cell_type"}, inplace=True) pbmc68k.obs["cell_type"] = pbmc68k.obs["cell_type"].cat.rename_categories( {"Dendritic": "Dendritic cells", "CD14+ Monocyte": "CD14+ Monocytes"} ) del pbmc68k.obs["G2M_score"] del pbmc68k.obs["S_score"] del pbmc68k.obs["phase"] del pbmc68k.obs["n_counts"] del pbmc68k.var["dispersions"] del pbmc68k.var["dispersions_norm"] del pbmc68k.var["means"] del pbmc68k.uns["rank_genes_groups"] del pbmc68k.uns["bulk_labels_colors"] sc.pp.subsample(pbmc68k, fraction=0.1, random_state=123) pbmc68k.write("scrnaseq_pbmc68k_tiny.h5ad")
- Return type:
AnnData