SmfishDataset

class scvi.dataset.SmfishDataset(save_path='data/', use_high_level_cluster=True, delayed_populating=False)

Bases: scvi.dataset.dataset.DownloadableDataset

Loads osmFISH data of mouse cortex cells from the Linarsson lab.

Parameters

• save_path (strstr) – Location to use when saving/loading the data.

• use_high_level_cluster (boolbool) – If True, use higher-level agglomerate clusters. The resulting cell types are “Astrocytes”, “Endothelials”, “Inhibitory”, “Microglias”, “Oligodendrocytes” and “Pyramidals”.

• delayed_populating (boolbool) – Switch for delayed populating mechanism.

Methods Summary

populate()

Populates a DonwloadableDataset object’s data attributes.

Methods Documentation

populate()

Populates a DonwloadableDataset object’s data attributes.

E.g by calling one of GeneExpressionDataset’s populate_from... methods.