infercnvpy.tl.umap

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infercnvpy.tl.umap#

infercnvpy.tl.umap(adata, neighbors_key='cnv_neighbors', key_added='cnv_umap', inplace=True, **kwargs)#

Compute the UMAP on the result of infercnvpy.tl.infercnv().

Thin wrapper around scanpy.tl.umap()

Parameters:

  • adata (AnnData) – annotated data matrix

  • neighbors_key (str (default: 'cnv_neighbors')) – Key under which the result of infercnvpy.pp.neighbors() is stored in adata

  • key_added (str (default: 'cnv_umap')) – Key under which the result UMAP will be stored in adata.obsm

  • inplace (bool (default: True)) – If True, store the result in adata.obsm, otherwise return the result of UMAP.

  • **kwargs – Additional arguments passed to scanpy.tl.umap().

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