issues
search
monarch-initiative
/
monarch-ingest
Data ingest application for Monarch Initiative knowledge graph using Koza
https://monarchinitiative.org
14
stars
1
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
Restore phenio doc
#552
kevinschaper
closed
10 months ago
0
Attempt to update to Pydantic v2
#551
glass-ships
closed
9 months ago
1
notebook - KG diff from stats
#550
madanucd
closed
9 months ago
0
Monarch-App Issue 438 add BioGRID ingest
#549
RichardBruskiewich
closed
9 months ago
1
Keep all phenio node columns
#548
kevinschaper
closed
10 months ago
0
Upload data dir to monarch-archive
#547
kevinschaper
closed
10 months ago
0
Flesh out pheno README
#546
RichardBruskiewich
closed
9 months ago
0
Add TSV export, borrowing from release-utils
#545
kevinschaper
closed
10 months ago
0
issue-426-goa-provenance
#543
RichardBruskiewich
closed
10 months ago
0
Update Koza and move to Pydantic V2
#542
glass-ships
closed
9 months ago
0
add additional entity field tokenizations
#541
kevinschaper
closed
9 months ago
0
Update closurizer to 0.4.1 to fix string vs array aggregation problem in denormalized edge output
#540
kevinschaper
closed
11 months ago
0
Index SSSOM in Solr, update closurizer
#539
kevinschaper
closed
11 months ago
0
Adds a notebook experiment for replacing closurizer's use of petl
#538
kevinschaper
closed
9 months ago
0
set public-read on kg-hub upload (plus formatting)
#537
glass-ships
closed
10 months ago
1
Graph stats notebook
#536
kevinschaper
closed
6 months ago
0
Adds an experimental polars closurizing notebook
#535
kevinschaper
closed
8 months ago
0
Add documentation pages to Phenio
#534
matentzn
closed
11 months ago
0
Assess whether Monarch STRING ingest prioritizes high quality knowledge over computed results
#533
monicacecilia
opened
11 months ago
0
update sources documentation
#532
glass-ships
closed
11 months ago
1
Add \r scrubbing for transform output and rdf
#531
kevinschaper
closed
11 months ago
0
Upload failed builds / update closurizer
#530
kevinschaper
closed
11 months ago
0
replace biolink:Occurrent as category with biolink:BiologicalProcessOrActivity to bring GO back manually, real fix to come from phenio soon
#529
kevinschaper
closed
11 months ago
0
Partial resolution of Monarch App issue#393
#528
RichardBruskiewich
closed
11 months ago
1
Update closurizer to only count publications & has_evidence towards evidence_count Report all excluded nodes in qc
#527
kevinschaper
closed
11 months ago
0
Remove monarch-py as a dependency to avoid incompatible dependencies between sssom-py & kgx, get the schema with curl commands instead
#526
kevinschaper
closed
1 year ago
0
Add a sed command to fix odd orphanet prefixes
#525
kevinschaper
closed
1 year ago
0
update primary_knowledge_source in hpoa.md
#524
glass-ships
closed
1 year ago
0
Address inconsistencies in documentation for HPOA vs. HPO-Annotations
#523
glass-ships
opened
1 year ago
0
Update pombase curie prefix in ingest & tests
#521
kevinschaper
closed
1 year ago
0
Update monarch-py to latest, download and populate phenio.db term_association table with phenotype associations
#519
kevinschaper
closed
1 year ago
0
Stats uploads to KG-Hub need to be publicly accessible
#518
caufieldjh
closed
10 months ago
6
Populate term_associations in a phenio.db artifact
#517
kevinschaper
closed
1 year ago
1
Fix jsonl/neo4j artifact generation & taxon configuration for alliance gene
#516
kevinschaper
closed
1 year ago
0
"Also known as" on gene pages mixes up genes and diseases (suggesting problem in ingest)
#522
nlharris
opened
1 year ago
1
Will yeast (S. pombe and S. cerevisiae) orthologs be included?
#520
ValWood
closed
4 months ago
6
Fix pombase gene ingest
#515
kevinschaper
closed
1 year ago
0
Update poetry lock
#514
kevinschaper
closed
1 year ago
0
Poetry can't resolve depenencies
#513
glass-ships
closed
1 year ago
1
add closure table to sqlite
#512
kevinschaper
closed
1 year ago
0
Added extra knowledge source fields for translator
#510
kevinschaper
closed
1 year ago
0
add sources landing page
#509
glass-ships
closed
1 year ago
0
Add sources index.md page
#508
glass-ships
closed
8 months ago
1
Make specific missing node / dangling edge reports for core ingests
#507
kevinschaper
opened
1 year ago
1
Exclude phenio edges with null subject/object
#506
kevinschaper
closed
1 year ago
2
Fix missing genes happening due to missing taxon info
#505
kevinschaper
closed
1 year ago
1
Move phenio filtering from an include list to an exclude list to be more permissive
#504
kevinschaper
closed
1 year ago
0
Review Dependabot Warnings
#503
glass-ships
closed
8 months ago
1
kghub upload is failing
#502
kevinschaper
closed
1 year ago
1
Upload to kghub using a release name without dashes
#501
kevinschaper
closed
1 year ago
1
Previous
Next