Expansion

Mutations that expand the graph.

pybel.struct.mutation.expansion.expand_node_predecessors(universe, graph, node)[source]

Expand around the predecessors of the given node in the result graph.

Parameters

  • universe (BELGraph) – The graph containing the stuff to add

  • graph (BELGraph) – The graph to add stuff to

  • node (BaseEntity) – A BEL node

pybel.struct.mutation.expansion.expand_node_successors(universe, graph, node)[source]

Expand around the successors of the given node in the result graph.

Parameters

  • universe (BELGraph) – The graph containing the stuff to add

  • graph (BELGraph) – The graph to add stuff to

  • node (BaseEntity) – A BEL node

Return type

None

pybel.struct.mutation.expansion.expand_node_neighborhood(universe, graph, node)[source]

Expand around the neighborhoods of the given node in the result graph.

Note: expands complexes’ members

Parameters

  • universe (BELGraph) – The graph containing the stuff to add

  • graph (BELGraph) – The graph to add stuff to

  • node (BaseEntity) – A BEL node

Return type

None

pybel.struct.mutation.expansion.expand_nodes_neighborhoods(universe, graph, nodes)[source]

Expand around the neighborhoods of the given node in the result graph.

Parameters

  • universe (BELGraph) – The graph containing the stuff to add

  • graph (BELGraph) – The graph to add stuff to

  • nodes (Iterable[BaseEntity]) – Nodes from the query graph

Return type

None

pybel.struct.mutation.expansion.expand_all_node_neighborhoods(universe, graph, filter_pathologies=False)[source]

Expand the neighborhoods of all nodes in the given graph.

Parameters

  • universe (pybel.BELGraph) – The graph containing the stuff to add

  • graph (pybel.BELGraph) – The graph to add stuff to

  • filter_pathologies (bool) – Should expansion take place around pathologies?

Return type

None

pybel.struct.mutation.expansion.expand_internal(universe, graph)[source]

Expand on edges between entities in the sub-graph that pass the given filters, in place.

Parameters

  • universe (BELGraph) – The full graph

  • graph (BELGraph) – A sub-graph to find the upstream information

Return type

None

pybel.struct.mutation.expansion.expand_upstream_causal(universe, graph)[source]

Add the upstream causal relations to the given sub-graph.

Parameters

  • universe (pybel.BELGraph) – A BEL graph representing the universe of all knowledge

  • graph (pybel.BELGraph) – The target BEL graph to enrich with upstream causal controllers of contained nodes

pybel.struct.mutation.expansion.expand_downstream_causal(universe, graph)[source]

Add the downstream causal relations to the given sub-graph.

Parameters

  • universe (pybel.BELGraph) – A BEL graph representing the universe of all knowledge

  • graph (pybel.BELGraph) – The target BEL graph to enrich with upstream causal controllers of contained nodes