HoloNet.tools.elements_expr_df_calculate

HoloNet.tools.elements_expr_df_calculate(used_interaction_db, complex_db, cofactor_db, adata)

Calculate the expression of elements, including ligand, receptor, co_and_receptor, AG and AN. Prepare for ‘compute_ce_tensor’ function

Parameters

used_interaction_db DataFrame

A preprocessed LR-gene dataframe.

complex_db DataFrame

A dataframe containing ligand or receptor complex.

cofactor_db DataFrame

A dataframe containing the cofactors for each LR pair.

adata AnnData

Annotated data matrix.

Return type

dict

Returns

: A dictionary including ligand, receptor, co_and_receptor, AG and AN