scvi.data.seqfishplus

scvi.data.seqfishplus(save_path='data/', tissue_region='subventricular cortex', run_setup_anndata=True)[source]

seqFISH+ of cortex, subventricular zone and olfactory bulb of mouse brain.

seqFISH+ can image mRNAs for 10,000 genes in single cells—with high accuracy and sub-diffraction-limit resolution—in the cortex, subventricular zone and olfactory bulb of mouse brain

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

Location to use when saving/loading the data.

tissue_region

Region of the mouse brain, Either “subventricular cortex” or “olfactory bulb”

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']), label info (.obs['labels']), spatial info (.obs['X'], .obs['Y'])

Examples

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