napistu.ingestion.napistu_edgelist
Module with helper functions to deal with edgelists
Edgelists are assumed to be DataFrames whose first two columns represent an Edge relation, eg From, To
Functions
Count the fraction of A-B edges which also show up as B-A edges |
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Remove reciprocal edges from an edgelist (i.e., if B-A always exists for every A-B then remove B-A) |
- napistu.ingestion.napistu_edgelist.count_fraction_of_reciprocal_interactions(edgelist: DataFrame, extra_defining_vars: list = []) float
Count the fraction of A-B edges which also show up as B-A edges
- Parameters:
edgelist (pd.DataFrame) – edgelist (pd.DataFrame): edgelist where the first two columns are assumed to be the edge vertices
extra_defining_vars (list) – list (which can be empty) of variables which define a unique interaction beyond the vertices
- Returns:
fraction of A-B edges which are also included as B-A edges
- Return type:
fraction (float)
- napistu.ingestion.napistu_edgelist.remove_reciprocal_interactions(edgelist: DataFrame, extra_defining_vars: list = []) DataFrame
Remove reciprocal edges from an edgelist (i.e., if B-A always exists for every A-B then remove B-A)
- Parameters:
edgelist (pd.DataFrame) – edgelist (pd.DataFrame): edgelist where the first two columns are assumed to be the edge vertices
extra_defining_vars (list) – list (which can be empty) of variables which define a unique interaction beyond the vertices
- Returns:
edgelist with B-A edges removed and A-B retained
- Return type:
indegenerate_edgelist (pd.DataFrame)