scvi.data.purified_pbmc_dataset#

scvi.data.purified_pbmc_dataset(save_path='data/', subset_datasets=None)[source]#

Purified PBMC dataset from: “Massively parallel digital transcriptional profiling of single cells”.

Parameters:
save_path : str (default: 'data/')

Location to use when saving/loading the data.

subset_datasets : List[str] | NoneOptional[List[str]] (default: None)

index for subsetting the follwing list of datasets which are used to form the PurifiedPBMCDataset: “cd4_t_helper”, “regulatory_t”, “naive_t”, “memory_t”, “cytotoxic_t”, “naive_cytotoxic”, “b_cells”, “cd4_t_helper”, “cd34”, “cd56_nk”, “cd14_monocytes”.

Return type:

AnnData

Returns:

AnnData with batch info (.obs['batch']) and label info (.obs['labels'])

Examples

>>> import scvi
>>> adata = scvi.data.purified_pbmc_dataset()