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Once
https://github.com/pombase/pombase-chado/issues/1195
done, compare
signalP (
Phobius (could use the InterPRoAPI for this)
DeepSig?
and decide thresholds to use to get best coverage. …
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### Task Description
After a quick look into the code, I saw some (legacy) code that is deprecated ( #1341, #1342, #1343, [cv](https://github.com/tripal/tripal/blob/4.x/tripal_chado/src/api/tripal_ch…
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### Publication and Data Information
Data:
* https://www.ncbi.nlm.nih.gov/genome/44710?genome_assembly_id=435334
* https://valleyoak.ucla.edu/genomic-resources/
### Additional Information
Need …
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Tripal3 supports non-Chado schema per announcement. It will be very useful to have documentation to implement this feature.
At NCGR we have developed a new generic schema (outside our Chado instan…
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right now, users submit metadata for an analysis, but that metadata is manually handled by the admin. In the future, the chado record will be created by this module.
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We need to load the ORCID of the session approver to JSON so we can load into Chado:
- https://github.com/pombase/pombase-chado/issues/1013#issuecomment-1774361202
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Currently, the link takes you directly to the Ftp site.
I think it would be better if we had a page like GO and FYPO where the format is described (and also duplicate this in the README)
The f…
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### Publication and Data Information
We have a new version of the Chinese chestnut genome (so not actually a new organism, just a new reference genome with new annotation and new features).
This …
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The basic ontologie on which others build upon (Relationship Ontology (ro.obo)) is no longer available under the URL used in the CHADO Makefile.
New location is at https://github.com/oborel/obo-relati…
iimog updated
8 years ago
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We are having a bit of trouble organizing controlled vocabularies in the CV and DB tables. The problem comes in with the "short name" (e.g. GO, SO, etc...) for the vocabulary which gets stored in the…