netmap.masking.internal.get_neighborhood_expression

netmap.masking.internal.get_neighborhood_expression(adata, knn_neighbours=10, required_neighbours=1)

Checks if each gene is expressed in the k-nearest neighbors (kNN) of each cell.

Parameters:

adata (anndata.AnnData) – An AnnData object with a kNN graph in adata.obsp[‘connectivities’].

Returns:

A cell x gene binary DataFrame where a value of 1 indicates

that the gene is expressed in at least one of the cell’s nearest neighbors, and 0 otherwise.

Return type:

pd.DataFrame