stereoAlign.alignment.mnn_alignment

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

MNN wrapper function (mnnpy implementation)

Based on mnnpy 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

Returns:

anndata object containing the corrected feature matrix