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geneontology
A collection of metadata, tools, and files associated with the Gene Ontology public web presence.
The [documentation](https://wiki.geneontology.org/index.php/GAF_Col17_GeneProducts) for column 17 is somewhat incomplete and, in places, ambiguous. I think that the explicit intention for this field is to show that that biological property is associated...
ECO:0005543 biological system reconstruction evidence by experimental evidence from mixed species used in manual assertion has 'with_presence' optional in eco-usage-constraints.yaml. This is wrong, for EXP this should be disallowed. I...
It's that time again! Just like in #1926, this ticket is for testing the switchover to pulling PANTHER19.0-based PAINT IBAs in the GO pipeline. The pipeline should also pull the...
- [x] FAILS GORULE:0000027 - TEST 6 - Prefix in column 1 ("WormBase") is a synonyms in /db-xrefs.yaml and IS REPAIRED `WormBase WBGene00000002 aat-1 part_of GO:1990184 PMID:14668347 IPI WB:WBGene00000225 C...
Currently, EcoCyc is provided to us with https://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/18.E_coli_MG1655.goa, in the `UniProtKB` namespace, as provided by GOA. We have been requested, by Peter Karp, to get this under the `EcoCyc` namespace,...
Modify the goref parser so that it can generate a `gorefs.json` equivalent to `gorefs.yaml` so that it can be validated by the JSON Schema in PR #1814.
I was just checking http://current.geneontology.org/reports/rgd-summary.txt . Among others, these lines are shown: For rule GO_AR:0000014 (http://www.geneontology.org/GO.annotation_qc.shtml#GO_AR:0000014) Valid GO term ID, there are 1588 violations with type Error. However, when I...
The current crop of URLs in the dbxefs.yaml file for Xenbase do not appear to be working. @malcolmfisher103 may be able to help us get the correct ones? We'd like...
When ECO removes ECO:0005547 mapping to IC we can change the fail mode back to ERROR. https://github.com/evidenceontology/evidenceontology/issues/262#
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A collection of metadata, tools, and files associated with the Gene Ontology public web presence.