bbknn

scib.integration.bbknn(adata, batch, hvg=None, **kwargs)

BBKNN wrapper function

Based on bbknn package version 1.3.9

Parameters:

• adata – preprocessed anndata object

• batch – batch key in adata.obs

• hvg – list of highly variables to subset to. If None, the full dataset will be used

Params **kwargs:

additional parameters for BBKNN

Returns:

anndata object containing the corrected graph