scvi.data.frontalcortex_dropseq

scvi.data.frontalcortex_dropseq(save_path='data/', run_setup_anndata=True)[source]

Load the cells from the mouse frontal cortex sequenced by the Dropseq technology (Saunders et al., 2018).

Load the 71639 annotated cells located in the frontal cortex of adult mouses among the 690,000 cells studied by (Saunders et al., 2018) using the Drop-seq method. We have a 71639*7611 gene expression matrix Among the 7611 genes, we offer the user to provide a list of genes to subsample from. If not provided, all genes are kept.

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

Location to use when saving/loading the data.

run_setup_anndata : boolbool (default: True)

If true, runs setup_anndata() on dataset before returning

Return type

AnnDataAnnData

Returns

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

Examples

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