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Pierrette's comments:
For Biospecimen/Assay/DataFile, we have discussed EDAM, OBI, etc. Sample Type, File Type, etc.
Currently, we have a controlled vocabulary, but using a pre-existing ontology might allow us to have more relationships/hierarchies, e.g., between Data Categories & Types. Maybe we could annotate Experimental Platform and then have a search widget for users to search parent categories?
The text was updated successfully, but these errors were encountered:
lopierra
changed the title
All - Determine enums/vocab for the various fields (have discussed EDAM, OBI, etc.)
Assay - add ontology terms for enums (have discussed EDAM, OBI, etc.)
Feb 14, 2023
lopierra
changed the title
Assay - add ontology terms for enums (have discussed EDAM, OBI, etc.)
Add more ontology terms for enums
Feb 14, 2023
Matt and I have discussed two options for including enums from ontology terms, (1) an explicit enumeration of terms in enum definitions or (2) referencing subsets of terms defined in an external Application Ontology.
Currently the decision is for (1) to define a fixed set of terms in the schema in advance because the LinkML docs says "this works well if the vocabulary is known in advance and it is a relatively small number of terms" [1].
lopierra
changed the title
Develop enums for Biospecimen, Data File, Assay and add ontology terms
Develop enums for Study, Biospecimen, Data File, Assay and add ontology terms
Mar 25, 2024
Add/review/finalize enums/ontology terms for the following Study/Dataset fields (see notes here):
Pierrette's comments:
For Biospecimen/Assay/DataFile, we have discussed EDAM, OBI, etc. Sample Type, File Type, etc.
Currently, we have a controlled vocabulary, but using a pre-existing ontology might allow us to have more relationships/hierarchies, e.g., between Data Categories & Types. Maybe we could annotate Experimental Platform and then have a search widget for users to search parent categories?
The text was updated successfully, but these errors were encountered: