scanpy.datasets.ebi_expression_atlas

scanpy.datasets.ebi_expression_atlas(accession, *, filter_boring=False)

Load a dataset from the EBI Single Cell Expression Atlas.

Downloaded datasets are saved in directory specified by sc.settings.datasetdir.

Parameters
accession : strstr

Dataset accession. Like E-GEOD-98816 or E-MTAB-4888. This can be found in the url on the datasets page. For example: https://www.ebi.ac.uk/gxa/sc/experiments/E-GEOD-98816/results/tsne

filter_boring : boolbool

Whether boring labels in .obs should be automatically removed.

Example

>>> adata = sc.datasets.ebi_expression_atlas("E-MTAB-4888")
Return type

AnnDataAnnData