R/example_graph.neo4j_engine.R
example_graph.neo4j_engine.RdGiven a KGX Neo4j KG engine, returns a graph representing the diversity of node categories and edge predicates for browsing. The returned graph is guaranteed to contain at least one node of every category, and at least one edge of every predicate. No other guarantees are made: the example graph is not minimal to satisfy these criteria, it is not random or even pseudo-random, and it may not be connected.
# S3 method for class 'neo4j_engine'
example_graph(engine, ...)A tbl_kgx graph
# Retrieve and print an example graph:
g <- monarch_engine() |> example_graph()
#> Trying to connect to https://neo4j.monarchinitiative.org
#> Connected to https://neo4j.monarchinitiative.org
print(g)
#> # A tbl_graph: 63 nodes and 37 edges
#> #
#> # A directed acyclic multigraph with 27 components
#> #
#> # Node Data: 63 × 16 (active)
#> id category pcategory name symbol in_taxon_label description synonym
#> <chr> <list> <chr> <chr> <chr> <chr> <chr> <list>
#> 1 GO:0006493 <chr> biolink:… prot… NA NA A protein … <chr>
#> 2 RGD:62060 <chr> biolink:… Ogt Ogt Rattus norveg… NA <chr>
#> 3 NCBIGene:… <chr> biolink:… OGT OGT Canis lupus f… O-linked N… <lgl>
#> 4 GO:0000123 <chr> biolink:… hist… NA NA A protein … <chr>
#> 5 RGD:3982 <chr> biolink:… Yy1 Yy1 Rattus norveg… NA <chr>
#> 6 GO:0010467 <chr> biolink:… gene… NA NA The proces… <lgl>
#> 7 MONDO:010… <chr> biolink:… over… NA NA A disease … <chr>
#> 8 CLINVAR:1… <chr> biolink:… NM_0… NA Homo sapiens NA <lgl>
#> 9 OBA:20500… <chr> biolink:… seru… NA NA The amount… <chr>
#> 10 HP:0003542 <chr> biolink:… Incr… NA NA The concen… <chr>
#> # ℹ 53 more rows
#> # ℹ 8 more variables: iri <chr>, xref <list>, namespace <chr>,
#> # provided_by <list>, full_name <chr>, in_taxon <list>, type <list>,
#> # has_gene <list>
#> #
#> # Edge Data: 37 × 22
#> from to subject predicate object primary_knowledge_so…¹ knowledge_level
#> <int> <int> <chr> <chr> <chr> <chr> <chr>
#> 1 2 1 RGD:62060 biolink:a… GO:00… infores:rgd knowledge_asse…
#> 2 2 3 RGD:62060 biolink:o… NCBIG… infores:panther knowledge_asse…
#> 3 2 4 RGD:62060 biolink:p… GO:00… infores:rgd knowledge_asse…
#> # ℹ 34 more rows
#> # ℹ abbreviated name: ¹primary_knowledge_source
#> # ℹ 15 more variables: negated <lgl>, species_context_qualifier <chr>,
#> # agent_type <chr>, knowledge_source <chr>,
#> # aggregator_knowledge_source <list>, has_evidence <list>,
#> # provided_by <list>, id <chr>, category <list>, publications <list>,
#> # original_object <chr>, qualifiers <list>, original_predicate <chr>, …