Child pages
  • Configuring annotations and namespaces in bel.rb (2016-01-21)

Versions Compared

Key

  • This line was added.
  • This line was removed.
  • Formatting was changed.

...

Discussion

  1. BEL URIs are not linked and are not common (e.g. identifiers.org/…).

  2. Custom namespaces used: MicroRNA namespaces (mirbase), enzymes, groups, and complexes (some have names). List of compound names are defined as a custom namespace. Chemical structures are defined in a separate file using inchi format (see ChemSpider RDF for ideas).

  3. Follow up with closed issue #40 to see if chemical terms are handled. Add test if not present.

  4. BEL scripts with custom, non-openbel namespaces do not result in a URI when converting to RDF.

Proposal:

Allow annotation and namespace overrides when translating to RDF. Opened issue #92 with more detail.