PropertyValue for LabProtocol type properties

[ljgarcia]

The components of an ISA protocol can be mapped to labEquipment, reagent and computationalTool and for that we need PropertyValue as a possible range.

I have looked at labEquipment and reagent, and it makes sense to add PropertyValue as a possible range. They already take DefinedTerm as possible value and a PropertyValue is kind of similar but for cases where the DefinedTerm is not possible.

I can do it for computationalTool as well but not sure how it would work. Do you have an example?

For bioSample the preferred way would be using a bioschemas:BioSample but as it also takes DefinedTerm I can also add PropertyValue if you need it. We also have sample that takes Thing as anything can be a sample of something. We can add DefinedTerm and PropertyValue to allow more specific information, I think it would make sense.

So, from the following list, please let me know where you need PropertyValue:

• labEquipment
• bioSample
• sample
• reagent
• computationalTool --for this one an example would be nice as I still do not fully understand how a PropertyValue would be used here

Thanks!

[HLWeil]

IMO, the big advantage of a PropertyValue in this context is, that you can use it as a structured Key-Value Pair. It basically contextualizes the value you insert. I would suggest to extend the range of those fields, which could be used to describe entities that should be used as necessary tools in the protocol:

• labEquipment
• reagent

• computationalTool

  The contextualization could then be used to describe the purpose or task this entity fulfills.

As an example for a computational tool, you could use STAR as the tool for aligning gene sequences:

        {
            "@type": "PropertyValue",
            "name": "Sequence Alignment Software Name",
            "value": "STAR",
            "propertyID": "http://purl.obolibrary.org/obo/NCIT_C175896"
        }

[ljgarcia]

Done, see https://github.com/BioSchemas/specifications/pull/668

[ljgarcia]

Closing as done