past.Utils.get_bulk

past.Utils.get_bulk(adata_ref, key, min_samples=11, r=0.5)

construct pseudo bulk from reference dataset according to annotation

Parameters:

  • adata_ref – reference dataset of anndata format

  • key – key of the annoatation

  • min_samples – minimum number of pseudo bulk samples should be constructed from reference dataset

  • r – ratio for sampling from reference dataset to construct pseudo bulk sample

Returns:

pseudo bulk samples of anndata format

Return type:

scanpy.anndata