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wikipathways / WpVocabularies

WikiPathways vocabularies for RDF representation
https://vocabularies.wikipathways.org/
Apache License 2.0
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Why multiple terms for DataNode? #14

Closed ariutta closed 7 years ago

ariutta commented 7 years ago

Why do we have three vocabulary entries for DataNode?

  1. wpTypes:Datanode
  2. gpml:DataNode
  3. wp:DataNode

Can't we define it just one time to keep things simple?

AlexanderPico commented 7 years ago

wp and gpml are necessary, because they are conceptually different. The gpml vocab is generic, capturing the structure and layout, while the wp vocab is specific to our usage at WikiPathways, capturing the biology. This section of the paper explains in more detail: http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1004989#sec002

@RyAMiller started the wpTypes vocab, so perhaps he can comment on its use cases....

mkutmon commented 7 years ago

Quick comment about the WpTypes vocabulary. A while ago, we discussed the idea to set up a vocabulary describing valid dataNode and interaction (arrowhead) values that can be shared between PV and pvjs. This was set up but I am not sure about its status. I don't think it's used anywhere at the moment.