liana.ds.kuppe_2022

Contents

liana.ds.kuppe_2022#

liana.ds.kuppe_2022()#

Load a single 10X Visium slide from Kuppe et al., 2022.

The slide (Visium_19_CK297) is taken from the ischemic zone of the heart of a patient with myocardial infarction. Kuppe, C., Ramirez Flores, R.O., Li, Z. et al. Spatial multi-omic map of human myocardial infarction. Nature 608, 766-777 (2022). https://doi.org/10.1038/s41586-022-05060-x

Return type:

AnnData

Returns:

Returns an AnnData object with raw counts for ~4k spots, along with the spatial coordinates in obsm['spatial'] and the cell type compositions of each spot in obsm['compositions'].

Examples

This downloads ~45MB into scanpy.settings.datasetdir on first call, so it is not run here:

import liana as li

adata = li.ds.kuppe_2022()

It is the slide used in the bivariate metrics and MISTy tutorials.

Contents