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ncbo
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BioPortal-to-KGX
Assemble a BioPortal Knowledge Graph
BSD 3-Clause "New" or "Revised" License
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Fix missing Bioportal source names
#89
caufieldjh
closed
1 year ago
0
Source metadata is missing in new transforms
#88
caufieldjh
closed
1 year ago
0
Refactor prefix normalization
#87
caufieldjh
closed
1 year ago
0
Refresh dependencies and docs
#86
caufieldjh
closed
1 year ago
1
Transform from most recent BioPortal data
#85
caufieldjh
opened
1 year ago
0
Add and use namespace maps to set Biolink categories
#84
caufieldjh
closed
2 years ago
0
Fix a couple validator-related bugs
#83
caufieldjh
closed
2 years ago
0
UnboundLocalError: local variable 'nodecount' referenced before assignment
#82
caufieldjh
closed
2 years ago
0
validate() got an unexpected keyword argument 'stream'
#81
caufieldjh
closed
2 years ago
0
Address error encountered sometimes when relaxing ontologies
#80
caufieldjh
closed
2 years ago
0
Error in relaxing Cell Cycle Ontology, BERO, and PR
#79
caufieldjh
closed
2 years ago
5
More, better, fancier normalization, and related bugfixes
#78
caufieldjh
closed
2 years ago
0
Fixes for repairing obojson values with Strange Prefixes
#77
caufieldjh
closed
2 years ago
0
Find alternate solution to SSSOM maps for adding Biolink categories
#76
caufieldjh
closed
2 years ago
1
Produce stats yaml with status and node/edge count of each ontology source
#74
caufieldjh
closed
2 years ago
1
Refactor, remodel, and re-do prefix mapping
#73
caufieldjh
closed
2 years ago
3
Collision between ATO and ATOL, potentially others of similar names
#72
caufieldjh
closed
2 years ago
1
A few updates for stats generation
#71
caufieldjh
closed
2 years ago
0
A few more prefixes, previously missed
#70
caufieldjh
closed
2 years ago
0
Prefix updates, with focus on OBO prefixes
#69
caufieldjh
closed
2 years ago
0
Fix prefixes for OBO:[external resource]
#68
caufieldjh
closed
2 years ago
1
Convert prefix conversion to use `curies` package
#67
caufieldjh
closed
2 years ago
2
Missing IRIs and metadata from many transforms
#66
caufieldjh
opened
2 years ago
7
Transform, map, and prefix updates
#65
caufieldjh
closed
2 years ago
0
Some prefixes need updates as of Jul 20 2022 BP dump
#64
caufieldjh
closed
2 years ago
0
UMLS semantic types not being applied
#63
caufieldjh
closed
2 years ago
1
HGNC type maps incorrect
#62
caufieldjh
closed
2 years ago
0
Catch IndexError on malformed header from 4store dump
#61
caufieldjh
closed
2 years ago
0
General transformation failures for the July 20 2022 data
#60
caufieldjh
closed
2 years ago
3
Transform for `RDL` fails
#59
caufieldjh
closed
2 years ago
4
Transform for `ISSVA` fails
#58
caufieldjh
closed
2 years ago
1
Update mappings for `mapping_justification` change in SSSOM
#57
caufieldjh
closed
2 years ago
0
ValueError: mapping_justification must be supplied
#56
caufieldjh
closed
2 years ago
1
Further prefix updates and corrections
#55
caufieldjh
closed
2 years ago
1
Improve Biolink node type assignments
#54
caufieldjh
closed
2 years ago
1
Omit biolink:OntologyClass when assigning new node category
#53
caufieldjh
closed
2 years ago
0
Aim 2.3.a. Evaluate extent of expected integration between BioPortal ontologies.
#52
caufieldjh
opened
2 years ago
0
Aim 2.2.d. Develop and apply methods for mapping BioPortal ontology elements to OBO ontologies.
#51
caufieldjh
opened
2 years ago
2
Update biolink stats table
#50
caufieldjh
closed
2 years ago
0
General fixes for CURIEs, prefixes, and transform errors
#49
caufieldjh
closed
2 years ago
0
A bugfix for pandas validation
#48
caufieldjh
closed
2 years ago
0
Some transforms fail during translation to TSV, but write placeholder
#47
caufieldjh
closed
2 years ago
1
SNOMEDCT transform fails
#46
caufieldjh
closed
2 years ago
1
Find the set of all IRI prefixes used across Bioportal
#45
caufieldjh
closed
2 years ago
2
More node category remapping and CURIE assignment
#44
caufieldjh
closed
2 years ago
3
Bugfix for case of empty transforms during type remap
#43
caufieldjh
closed
2 years ago
0
Add type remapping functionality
#42
caufieldjh
closed
2 years ago
0
Updates for biolink class stats
#41
caufieldjh
closed
2 years ago
0
Scripts for enumerating Biolink usage across graph transforms
#40
caufieldjh
closed
2 years ago
0
Aim 2.2.c. Develop and apply methods for mapping BioPortal ontology elements to Biolink model.
#39
caufieldjh
closed
2 years ago
4
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