sainsc.utils.celltype_signatures

sainsc.utils.celltype_signatures(adata, *, celltype_col='leiden', layer=None, dtype=np.float32)

Calculate gene expression signatures per ‘cell type’.

Parameters:

• adata (AnnData)

• celltype_col (str, optional) – Name of column in anndata.AnnData.obs containing cell-type information.

• layer (str, optional) – Which anndata.AnnData.layers to use for aggregation. If None, anndata.AnnData.X is used.

• dytpe (numpy.typing.DTypeLike) – Data type to use for the signatures.

Returns:

pandas.DataFrame of gene expression aggregated per ‘cell type’.

Return type:

DataFrame