EDAM is an ontology of general bioinformatics concepts, including topics, data types, formats, identifiers and operations. EDAM provides a controlled vocabulary for the description, in semantic terms, of things such as: web services (e.g. WSDL files), applications, tool collections and packages, work-benches and workflow software, databases and ontologies, XSD data schema and data objects, data syntax and file formats, web portals and pages, resource catalogues and documents (such as scientific publications).

Prefix

edam

Version

2019-07-17

Links

Homepage Repository OBO OWL @edamontology

Contact

Matúš Kalaš   0000-0002-1509-4981   matuskalas

Pattern for Local Unique Identifiers

Local identifiers in Bioinformatics operations, data types, formats, identifiers and topics should match this regular expression:
^(data|topic|operation|format)\_\d{4}$

Example Local Unique Identifier

data_1664   Resolve

Pattern for CURIES

Compact URIs (CURIEs) constructed from Bioinformatics operations, data types, formats, identifiers and topics should match this regular expression:
^edam:(data|topic|operation|format)\_\d{4}$

Example CURIE

edam:data_1664

Publications

2013 EDAM: an ontology of bioinformatics operations, types of data and identifiers, topics and formats.

Has Part

edam.data edam.format edam.operation edam.topic

The metaregistry provides mappings between the Bioregistry and other registries. There are 10 mappings to external registries for edam with 2 unique external prefixes.

Providers are various services that resolve CURIEs to URLs. The example CURIE edam:data_1664 is used to demonstrate the provides available for edam. Generation of OLS and BioPortal URLs requires additional programmatic logic beyond string formatting.