phenotype annotation - Githubissues

intermine / pombemine

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phenotype annotation #27

Closed ValWood closed 2 years ago

ValWood commented 2 years ago

I can't seem to get from gene to phenotype annotation (It seems that only GO is available?)

It would also be easier for users if GO and phenotype were separate classes available from 'Gene'

rachellyne commented 2 years ago

@ValWood Phenotype annotations are referenced from Alleles. So you have to go Allele -> Phenotype annotation.

ValWood commented 2 years ago

Phenotype annotations are referenced from Alleles. So you have to go Allele -> Phenotype annotation.

Right. But I would have expected to be able to then connect alleles to genes? -most users are interested in the gene that has the phenotype, even though the phenotype is (correctly) attached to the allele.

rachellyne commented 2 years ago

You can hide that complexity in a template. I'll make one that connects genes directly to phenotypes.

rachellyne commented 2 years ago

@ValWood http://met1.gen.private.cam.ac.uk:5050/pombemine/templates/Gene_Phenotype

Literally just contains the phenotype annotation at the moment but can configure with more columns, or make a separate more complex template.