monarch-initiative/biolink-api

Issues

• error when retrieving data for a specific id

  #393 opened 3 years ago by dominickdm
  1

• feature request: resolve list of ontology terms

  #396 opened 2 years ago by bheavner
  0

• SSL certificate for https://api.monarchinitiative.org/ set to expire on June 3rd (15 days)

  #395 opened 3 years ago by TheMadBug
  1

• biolink-api /bioentity/function/ route does not seem to implement taxon filters

  #365 opened 4 years ago by kltm
  11

• Add general api endpoint for mapping taxon labels to ids?

  #391 opened 3 years ago by vincerubinetti
  6

• "category" field in /nlp/annotate/entities is always empty

  #387 opened 3 years ago by falquaddoomi
  2

• `/sim/compare` `GET` results different from `POST` results

  #389 opened 3 years ago by vincerubinetti
  7

• Text annotator data needs significant cleaning

  #390 opened 3 years ago by vincerubinetti
  2

• Include taxon id with taxon label in facet count of entity search endpoint

  #386 opened 3 years ago by vincerubinetti
  5

• SciGraph returning incorrect text/indices on Monarch API

  #385 opened 3 years ago by gaurav
  0

• Question about the phenotyping sufficiency score

  #384 opened 3 years ago by sophie22
  2

• Run tests on dockerized application prior to pushing to dockerhub

  #383 opened 3 years ago by kshefchek
  0

• Allow biolink to boot up without a running instance of owlsim

  #378 opened 3 years ago by kshefchek
  1

• bioentity/{id} should include the alternative ids for both primary and deprecated ids

  #369 opened 4 years ago by kshefchek
  0

• Consider more proactive sanitizing of inputs and output in API

  #371 opened 4 years ago by kltm
  0

• Add disease chemical data from CTD

  #375 opened 3 years ago by kshefchek
  0

• search api includes solr tokenizer fields unlikely useful for users

  #366 opened 4 years ago by kshefchek
  0

• Add news endpoint that returns monarch blog rss feed

  #354 opened 5 years ago by kshefchek
  0

• Add synonym types to bioentity {id} endpoints

  #353 opened 5 years ago by kshefchek
  0

• 504 errors for /sim/search when limit varies

  #379 opened 3 years ago by cemordaunt
  3

• Adjustments to owlsim service to prevent server overload

  #380 opened 3 years ago by kshefchek
  1

• Evidence graph is broken for publication - x associations

  #376 opened 3 years ago by kshefchek
  0

• Add autocomplete function to help POET

  #372 opened 3 years ago by monicacecilia
  2

• /sim/search - limit question

  #374 opened 4 years ago by dominickdm
  1

• Allow search to filter diseases only in OMIM

  #368 opened 4 years ago by kshefchek
  6

• licensing vs usage of api.monarchinitiative.org/api

  #360 opened 4 years ago by olszewskip
  6

• api/sim/search: 504 Gateway Time-out

  #370 opened 4 years ago by dominickdm
  3

• Add ability to filter variants by clinvar confidence score for disease variant associations

  #364 opened 4 years ago by kshefchek
  0

• Add endpoint for variant pivot table on relation (patho, likely patho) and gene given a disease ID

  #363 opened 4 years ago by kshefchek
  0

• Add scigraph clique and candidate clique endpoints to biolink (dupe see #55)

  #359 opened 4 years ago by kshefchek
  2

• gene_to_uniprot_from_mygene (mapping of HGNC issue)

  #358 opened 4 years ago by lpalbou
  1

• Switch scigraph annotate backend to scigraph-ontology

  #355 opened 5 years ago by kshefchek
  1

• Query with content-type : application/json returns 400 status code

  #328 opened 5 years ago by lpalbou
  1

• Move data manipulation in monarch-ui to ontobio/biolink-api

  #356 opened 5 years ago by kshefchek
  1

• Version API and add to pypi

  #350 opened 5 years ago by kshefchek
  1

• Optional parameter to disable inferring of taxon when fetching associations

  #337 opened 5 years ago by deepakunni3
  1

• Add ability to filter on leaf nodes in autocomplete

  #347 opened 5 years ago by kshefchek
  2

• remove deprecated werkzeug.cached_property

  #349 opened 5 years ago by kshefchek
  1

• Add tsv serializer to /sim/search and /sim/compare

  #348 opened 5 years ago by kshefchek
  0

• Update phenotype closure bins with new Upheno classes

  #345 opened 5 years ago by kshefchek
  1

• Add equivalent ids in bioentity/{id} endpoint

  #346 opened 5 years ago by kshefchek
  0

• Getting 504 for function endpoint in gene

  #343 opened 5 years ago by Prakash2403
  0

• Move monarch-mme code to ontobio/biolink-api

  #340 opened 5 years ago by kshefchek
  0

• Subject_label null for mart queries

  #339 opened 5 years ago by kshefchek
  0

• nginx errors after upgrading to gunicon 20.0.0

  #338 opened 5 years ago by kshefchek
  0

• Cache gene sets and allow for set operations

  #336 opened 5 years ago by kshefchek
  0

• Have biolink pull gene desriptions and pubmed info from mygene and eutils

  #333 opened 5 years ago by kshefchek
  0

• Slimmer route: add exclude_slim parameter

  #332 opened 5 years ago by lpalbou
  1

• Merge the implementations of some GO & Monarch BioLink routes

  #329 opened 5 years ago by lpalbou
  0

• Improve allele autocomplete

  #327 opened 5 years ago by cmungall
  0