netmap.masking.internal.create_pairwise_binary_mask

netmap.masking.internal.create_pairwise_binary_mask(binary_matrix, gene_list)

Creates a dictionary of binary masks for each cell and pair of genes, including both forward, reverse, and self-pairs (which are all zeros).

Parameters:

• matrix_cells_x_genes (np.ndarray) – A 2D numpy array where rows are cells and columns are genes.

• gene_list (list) – A list of strings containing the names of the genes, in the same order as the columns in the matrix.

Returns:

A dictionary where keys are gene pair strings (e.g., ‘GeneA_GeneB’)

and values are 1D numpy arrays representing the binary mask for that pair across all cells.

Return type:

dict