stereoAlign.alignment.bbknn_alignment

stereoAlign.alignment.bbknn_alignment(adata: AnnData, batch_key, hvg=None, **kwargs)[source]

BBKNN wrapper function

Based on bbknn package

Parameters:

  • adata – preprocessed anndata object

  • batch_key – 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