geneontology neo issues

geneontology / neo

noctua entity ontology

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Unknown reduction in entities in NEO build

#118 kltm closed 3 months ago
15
Add FB Developmental and Anatomy Ontology

#117 hattrill closed 6 months ago
14
add additional species names to gene labels

#116 balhoff opened 1 year ago
5
Ecoli data is gone from NEO as the upstream source changed

#114 kltm opened 1 year ago
13
Ensure AGI_LocusCode IDs are compacted in oio:id values.

#113 balhoff closed 1 year ago
1
In some cases bad identifiers are getting into the load

#112 kltm opened 1 year ago
5
Some e.coli entries not found

#111 pgaudet opened 1 year ago
18
Xenbase identifiers are not correct getting labels (in NEO?)

#109 kltm closed 1 year ago
5
Fix ampersand in XML issue

#108 balhoff closed 1 year ago
1
Add correct expansion for AGI_LocusCode prefix.

#107 balhoff closed 2 years ago
1
unresolved IDs

#106 tmushayahama opened 2 years ago
10
Transient Xenbase issue dropped GPI file

#104 malcolmfisher103 closed 2 years ago
1
Some IDs we expect are not found in Noctua

#103 pgaudet closed 2 years ago
5
Use correct IRI form for RNAcentral.

#101 balhoff closed 2 years ago
0
RNAcentral IDs incorrectly use OBO PURL namespace

#100 balhoff closed 1 year ago
5
Clarify and implement rules on inclusion of RNA gene products / RNA central

#99 cmungall opened 2 years ago
4
Isoform display in label (originally on the visual tool)

#102 pmasson55 opened 2 years ago
4
Many ChEBI chemicals not available for metabolic models

#96 marcfeuermann opened 2 years ago
17
Request to load more phage proteins

#95 dsiegele closed 2 years ago
2
Would like phage proteins to be available

#94 dsiegele closed 2 years ago
2
Xenbase entities do not seem to propagate to the NEO build from the Xenbase GPI

#93 kltm closed 2 years ago
6
NEO GOlr / Solr load does not use "modern" loader, so does not build all closures for "modern" AmiGO

#92 kltm opened 2 years ago
0
Some Reactome Identifiers are not resolving

#91 ukemi opened 2 years ago
11
Add minimal QC for NEO

#90 kltm opened 2 years ago
0
Add some minimal QC to the NEO pipeline

#89 kltm opened 2 years ago
14
Trace entities that do not create nice URIs (i.e. compact well to CURIEs in out pipeline) in NEO

#88 kltm closed 2 years ago
2
Issue 82 add all reviewed

#87 kltm closed 2 years ago
0
Hacks in the NEO build process prevent branches from coexisting

#86 kltm closed 2 years ago
1
(Re)add sar-cov-2 GPI to NEO load

#85 kltm closed 2 years ago
3
Use ROBOT instead of owltools in NEO build

#84 kltm opened 2 years ago
1
Use ROBOT instead of owltools.

#83 balhoff opened 2 years ago
1
Load all Swiss-Prot entries in NEO

#82 pgaudet closed 2 years ago
22
Ensure Complex Portal ids are correctly structured and typed

#81 balhoff closed 2 years ago
3
ID / name collisions in ecocyc and goa_sars-cov-2 against uniprot_reviewed_virus_bacteria causing problem in NEO pipeline

#80 kltm closed 2 years ago
16
add reviewed viruses and bacteria, adjust script to add filer

#79 kltm closed 2 years ago
0
ChEBI : limit load to ChEBI that have 'UniProt' synonyms

#78 pgaudet opened 2 years ago
10
Include viruses and bacteria in NEO

#77 pgaudet closed 2 years ago
26
Include Human Protein complexes in NEO

#76 pgaudet closed 2 years ago
21
Include Alliance automated gene descriptions as 'definitions' for gene entries

#75 vanaukenk opened 2 years ago
3
PRO ids map to more than one gene in PomBase gpi file - causing a neo build error

#74 vanaukenk closed 2 years ago
33
Model made in graph editor will not load into ART or Form

#73 hdrabkin closed 2 years ago
25
Check type of mouse ncRNA genes - not recognized in Noctua as valid annotation objects

#72 vanaukenk closed 2 years ago
7
Fix split limit bug; small env addition for testing

#71 kltm closed 3 years ago
3
MGI miRNA identifiers unavailable in NEO?

#70 vanaukenk closed 3 years ago
22
NEO no longer building

#69 kltm closed 3 years ago
10
Update Makefile with new location for sars-cov-2 data (kg)

#68 kltm closed 3 years ago
0
Create test runner for GitHub Actions

#67 balhoff closed 3 years ago
5
Tweak obo-uris hack to handle hash injected by OBO parser

#66 kltm closed 3 years ago
1
Tweak obo-uris hack to handle hash injected by OBO parser.

#65 balhoff closed 3 years ago
12
Is NEO typing PRO identifiers correctly?

#64 vanaukenk closed 3 years ago
5