Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Improve amigo xrefs page to better clarify the nature of the synonyms #697

Open
kltm opened this issue Sep 7, 2023 · 1 comment
Open

Comments

@kltm
Copy link
Member

kltm commented Sep 7, 2023

Currently, entries in db-xrefs.yaml and presented in the amigo /xrefs page as if they were "top-level" entries, which can cause confusion for some users (re: discussion w/ @pgaudet ). We would like to fix this.

For example, maybe instead of

[LocusID](https://amigo.geneontology.org/xrefs#LocusID)
NCBI Gene

Site
    http://www.ncbi.nlm.nih.gov/ 
Object
    gene 
Example ID
    NCBI_Gene:4771 
URL syntax
    https://www.ncbi.nlm.nih.gov/gene/[example_id] 
URL example
    https://www.ncbi.nlm.nih.gov/gene/4771

We could have:

NCBIGene (with synonym [LocusID](https://amigo.geneontology.org/xrefs#LocusID))
NCBI Gene

Site
    http://www.ncbi.nlm.nih.gov/ 
Object
    gene 
Example ID
    NCBI_Gene:4771 
URL syntax
    https://www.ncbi.nlm.nih.gov/gene/[example_id] 
URL example
    https://www.ncbi.nlm.nih.gov/gene/4771
@kltm
Copy link
Member Author

kltm commented Sep 7, 2023

Noting that I think this might be due to AmiGO still using xref_abbs somehow? The "best" thing would likely be to unsure that we are using the YAML, then iterate for the template and nest (and link) the synonyms there.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Development

No branches or pull requests

1 participant