TranslatorSRI Babel issues

TranslatorSRI / Babel

Babel creates cliques of equivalent identifiers across many biomedical vocabularies.

MIT License

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issues

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Add Translator "Fugu" 2024jul13 release information

#320 gaurav closed 3 months ago
0
Publish intermediate files or other information to explain how we came to our cliquing decisions

#319 gaurav opened 4 months ago
0
Different preferred labels with and without drug conflation

#318 gaurav opened 4 months ago
0
Include labels from DrugBank?

#317 gaurav opened 4 months ago
2
Improve prioritization

#316 gaurav opened 4 months ago
0
Types ordering in NameRes a little odd

#315 gaurav opened 4 months ago
0
Improve conflation for combinations like paxlovid or augmentin

#314 gaurav opened 4 months ago
0
Downscore labels which are very long or look like chemical names

#313 gaurav closed 2 weeks ago
0
Some genes have bad preferred names, but preferred prefix boosting might help

#312 gaurav opened 4 months ago
1
Chembl identifiers aren't being properly connected to other entities

#311 gaurav opened 4 months ago
0
Some entities are showing up in both proteins and chemicals

#310 gaurav opened 4 months ago
1
Add manual concords for other types

#309 gaurav opened 4 months ago
0
Some UMLS-MeSH connections are broken in Babel 2024jul13

#308 gaurav opened 4 months ago
0
PUBCHEM.COMPOUND:162343947 causing problems in drugchemical conflation in the current run

#307 gaurav opened 4 months ago
0
Label chosen as per preferred label prefixes for chemicals doesn't always return the best name

#306 gaurav opened 4 months ago
1
Should NCIT be an allowed prefix for proteins?

#305 gaurav opened 4 months ago
0
Carbon has a preferred label of "activated charcoal"

#304 gaurav opened 4 months ago
0
Add Mammalian Phenotype Ontology

#303 gaurav closed 4 months ago
1
Do a better job of cliquing inadequatelly mapped UMLS identifiers

#302 gaurav opened 4 months ago
1
Get synonyms-per-clique distribution

#301 gaurav opened 4 months ago
0
Add Mammalian Phenotype Ontology

#300 gaurav opened 4 months ago
0
Some concepts are being assigned to the wrong category

#299 gaurav opened 4 months ago
0
Why is `NCBITaxon:family` in Babel?

#298 gaurav opened 5 months ago
0
Improve BioMart downloads

#297 gaurav closed 2 months ago
0
Fix Reactome mapping

#296 gaurav closed 5 months ago
0
Incorporate LOINC into Babel

#295 gaurav opened 5 months ago
0
Store alternate type information in addition to Biolink types

#294 gaurav opened 5 months ago
0
Golgi apparatus split

#293 gaurav opened 5 months ago
0
Add Translator documentation

#292 gaurav opened 5 months ago
0
Replace the in-memory glomming code with DuckDB databases

#291 gaurav opened 5 months ago
0
Load all compendia and synonym files into DuckDB

#290 gaurav closed 2 weeks ago
0
Glimepiride has a long chemical name despite the alternate label algorithm

#289 gaurav opened 5 months ago
0
Lots of acetaminophens still not conflated with the main acetaminophen

#288 gaurav opened 5 months ago
0
Semaglutide is split

#287 gaurav opened 5 months ago
0
Some RxCUIs aren't properly combined into a true chemical

#286 gaurav opened 5 months ago
0
Missing deprecated/merged RxCUIs

#285 gaurav opened 5 months ago
0
Missing chemical with long name

#284 gaurav opened 5 months ago
0
Store chemicals in a better way

#283 gaurav opened 5 months ago
0
We don't have a label for DRUGBANK:DB12182

#282 gaurav closed 4 months ago
1
Develop an RDBMS schema for Babel outputs

#281 gaurav opened 6 months ago
1
Captopril not merging into drug

#280 cbizon opened 6 months ago
2
Babel 1.6

#279 gaurav closed 2 months ago
0
Removed special-cased Biolink prefixes

#278 gaurav closed 6 months ago
0
Unclear whether CellDevelopmentStep from Reactome are biological processes or pathways

#277 gaurav opened 6 months ago
0
An ID can be present in multiple cliques (CURIE duplication)

#276 gaurav opened 6 months ago
3
Replace config.json with config.yaml

#275 gaurav opened 6 months ago
0
Add manual concords for Disease to improve Opioid and Alcohol Use Disorder

#274 gaurav closed 6 months ago
0
Fix EFO labels and misc fixes

#273 gaurav closed 6 months ago
0
Generate combined nodes and edges files for KGX export

#272 gaurav opened 6 months ago
0
Many EFO terms have `"@e` at the end of their labels

#271 gaurav closed 6 months ago
0

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