Bridgedb

BridgeDb is a biological identifier mapping database and toolset used to translate identifiers across life-science data sources.

• Base URL: https://webservice.bridgedb.org
• Auth: bearer (pass your key via the apiKey input)

Operations

• get_organism_attributesearch_query — GET /{organism}/attributeSearch/{query} — Returns a list of xrefs and associated attributes that contain the query string
• get_organism_attributeset — GET /{organism}/attributeSet — Returns the supported attributes to the given Organism.
• get_organism_attributes_systemcode_identifier — GET /{organism}/attributes/{systemCode}/{identifier} — Returns the attributes for a given identifier, data source, organism. Optionally
• get_organism_isfreesearchsupported — GET /{organism}/isFreeSearchSupported — Returns true or false based on whether or not /{organism}/search/{query} is
• get_organism_ismappingsupported_sourcesystemcode — GET /{organism}/isMappingSupported/{sourceSystemCode}/{targetSystemCode} — Returns true or false based on whether or not /{organism}/xrefs/{systemCode}
• get_organism_properties — GET /{organism}/properties — Returns the list of properties available for a given organism

Inputs

• apiKey — your bridgedb API key
• operation — one of the operations above
• path parameters when an operation's path contains {...}
• query — optional JSON object of query params
• body — JSON object for create/update ops

Example

operation: get_organism_attributesearch_query
apiKey: <your key>

Publishes

The keys a later task may reference as {{taskName.key}}. Referencing anything not listed here resolves to nothing at run time.

• error
• operation
• result
• status

Input Properties

Every property this tool accepts, from its own tool.iml.