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monarch-initiative
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monarch-ingest
Data ingest application for Monarch Initiative knowledge graph using Koza
https://monarchinitiative.org
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HPO gene to disease ingest
#449
kevinschaper
closed
1 year ago
0
update mode of inheritance from hpoa to use new file header
#448
kevinschaper
closed
1 year ago
0
Dangling edges for Panther
#446
RichardBruskiewich
opened
1 year ago
7
Get Mondo SSSOM from a better url
#445
kevinschaper
closed
6 months ago
3
Add HPOA gene to disease ingest (and remove OMIM g2d)
#444
kevinschaper
closed
1 year ago
5
hpoa column & infores updates
#443
kevinschaper
closed
1 year ago
0
update kgx to get the rdf speedup fix
#441
kevinschaper
closed
1 year ago
0
upgrade monarch-py and linkml, plus use a dev branch of linkml-solr for single class support
#440
kevinschaper
closed
1 year ago
0
update koza & kgx to latest to get kgx rdf fixes
#439
kevinschaper
closed
1 year ago
0
HPOA should be using `infores:hpo-annotations` according to biolink
#438
matentzn
closed
1 year ago
1
Update name fields used for genes
#437
kevinschaper
closed
6 months ago
2
QoL Updates
#436
glass-ships
closed
1 year ago
1
Selective Orphanet prefix replacements for Mondo SSSOM & biolink
#435
kevinschaper
closed
1 year ago
0
Rescue 112k HPOA d2p edges with ORPHA -> MONDO mapping
#434
kevinschaper
closed
1 year ago
4
update docs-to-pages action, add typer generated CLI reference
#433
glass-ships
closed
1 year ago
0
Adds an overview doc for our kg build process
#432
kevinschaper
closed
1 year ago
0
Add cli docs for ingest command
#431
kevinschaper
closed
1 year ago
0
Document the ingest process
#430
kevinschaper
closed
1 year ago
0
Flip biolink:risk_affected_by to biolink:affects_risk_for in omim g2d
#427
kevinschaper
closed
1 year ago
0
try copying to kghub S3 as well
#426
glass-ships
closed
1 year ago
5
g2p via orthology "ingest"
#425
kevinschaper
closed
4 months ago
1
Upload to kghub S3 bucket
#424
kevinschaper
closed
1 year ago
4
Completes adding primary_knowledge_source for all edges
#423
kevinschaper
closed
1 year ago
0
Populate primary_knowledge_source for all edges
#422
kevinschaper
closed
1 year ago
1
Jenkins build failing, might be space
#421
kevinschaper
closed
1 year ago
1
Duplicate edges in merged KG
#420
kevinschaper
closed
1 year ago
6
Should we capture gene to phenotype associations with environmental conditions?
#419
kevinschaper
opened
1 year ago
2
Capture FlyBase Gene to Phenotype associations in a UPHENO connected way
#418
kevinschaper
opened
1 year ago
1
Add CHEBI to MESH mapping for CTD
#417
kevinschaper
closed
1 year ago
6
Populate name field in NCBI Gene load
#416
kevinschaper
closed
6 months ago
1
Include gene descriptions
#415
kevinschaper
closed
6 months ago
1
Update Bgee ingest
#414
cmungall
opened
1 year ago
3
Get relation graph tsv from phenio directly
#413
kevinschaper
closed
1 year ago
1
Add phenio relation graph file as stand alone download & sqlite artifact
#412
kevinschaper
opened
1 year ago
0
OMIM terms without any symbols should be on the exclude list
#411
sabrinatoro
closed
1 year ago
1
sync HPO annotations with Mondo classes
#410
nicolevasilevsky
opened
1 year ago
3
No synonyms coming in from Phenio for Mondo terms
#409
kevinschaper
opened
1 year ago
1
Update kgx graph summary command
#408
kevinschaper
closed
1 year ago
0
Produce kgx graph summary
#407
kevinschaper
closed
1 year ago
0
Produce kgx graph summary in build process
#406
kevinschaper
closed
1 year ago
1
Solr field types, dynamic fields and copy fields configuration
#405
kevinschaper
closed
1 year ago
0
Replace empty strings with null in sqlite artifact
#404
kevinschaper
opened
1 year ago
1
likely mapping error: HGNC:584 biolink:risk_affected_by HGNC:584 ??
#400
kevinschaper
closed
1 year ago
1
Anatomy edges should be mapped to Uberon
#399
kevinschaper
opened
1 year ago
7
Add category to edge_property list for bGee
#398
kevinschaper
closed
1 year ago
0
SSL/HTTPS for Dockerized Neo4j instance
#397
RichardBruskiewich
closed
1 year ago
1
Issue 357 dockerized neo4j
#396
RichardBruskiewich
closed
1 year ago
1
Update ingests to basic Biolink 3.1.1 compliance and cat-merge behaviour by removing 'source' but avoiding use of 'provided_by'
#395
RichardBruskiewich
closed
11 months ago
0
Include metadata in release
#394
kevinschaper
closed
7 months ago
0
ingest release command isn't copying to public data bucket or updating latest
#393
kevinschaper
closed
1 year ago
1
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