campmc.mt.metacell_sizes

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campmc.mt.metacell_sizes#

campmc.mt.metacell_sizes(adata, *, partition_key='camp')[source]#

Return per-metacell cell counts from adata.obs.

Parameters:
adata AnnData

AnnData with partition labels in obs.

partition_key str (default: 'camp')

Column in adata.obs with metacell labels.

Return type:

DataFrame

Returns:

DataFrame indexed by metacell id with a size column.

Examples

import campmc as cp
import scanpy as sc
adata = sc.datasets.pbmc68k_reduced()
cp.partition(adata, method="camp3", gamma=50, random_state=0)
cp.mt.metacell_sizes(adata).head()
size
camp
seed0-50-__all__ 65
seed1-50-__all__ 34
seed10-50-__all__ 3
seed11-50-__all__ 158
seed12-50-__all__ 42
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