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ontobio
python library for working with ontologies and ontology associations
https://ontobio.readthedocs.io/en/latest/
BSD 3-Clause "New" or "Revised" License
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gorule 61 implementation in ontobio
#533
dougli1sqrd
closed
3 years ago
0
Newest gocamgen fixes
#532
dustine32
closed
3 years ago
0
updating gorule 59 upconvert from gaf 2.1
#531
dougli1sqrd
closed
3 years ago
1
expand a TSV using ontology lookups
#530
cmungall
closed
3 years ago
1
Gocamgen changes - model taxon, provided_by, annot prop handling
#529
dustine32
closed
3 years ago
0
go summary notebook improvements
#528
cmungall
closed
3 years ago
0
removing .travis.yml since we now have github actions
#527
dougli1sqrd
closed
3 years ago
0
report message calls make sure to wrap taxon objects as strings
#526
dougli1sqrd
closed
3 years ago
0
Report should only receive strings and not objects
#525
dougli1sqrd
closed
3 years ago
1
Issue #513 - change annotation props from dict to list of 2-tuples
#524
dustine32
closed
3 years ago
0
Adding demo notebook to summarize GO term
#523
cmungall
closed
3 years ago
0
correcting the output formatter for extensions in gaf 2.2
#522
dougli1sqrd
closed
3 years ago
1
GAF 2.2 output generates extensions using CURIE for relations instead of underscore labels
#521
dougli1sqrd
closed
3 years ago
1
Test notebooks along side the usual suite of tests
#520
deepakunni3
opened
3 years ago
0
Fix filepaths for resources in tests
#519
deepakunni3
opened
3 years ago
0
Separate out unit and integration tests
#518
deepakunni3
opened
3 years ago
1
Go-site issue 1558 gorule 59
#517
dougli1sqrd
closed
3 years ago
1
Use behind proxy
#516
BenoitTS
opened
3 years ago
2
threading gaf output version number through validate and small bugfix in data output
#515
dougli1sqrd
closed
3 years ago
0
some parsing errors in gpad 1.2 are now properly caught and handled
#514
dougli1sqrd
closed
3 years ago
0
Annotation properties should allow multiple values of the same key
#513
dustine32
closed
3 years ago
1
Added README.md for gocamgen translation
#512
dustine32
closed
3 years ago
1
GPI 2.0 support with GPAD 2.0
#511
dougli1sqrd
opened
3 years ago
0
handling multiple rdfs labels
#510
goodb
opened
3 years ago
0
updating gpi parsing to allow for version 2.0. Tests for changes
#509
dougli1sqrd
closed
3 years ago
2
Fix dependencies in requirements.txt and setup.py
#508
deepakunni3
closed
3 years ago
8
question about owl:DatatypeProperty
#507
saramsey
opened
3 years ago
14
requirements.txt requiring networkx 2.2
#506
saramsey
closed
3 years ago
3
Ontology.merge copies logical defs and property chain axioms
#505
dustine32
closed
3 years ago
2
Ontology.merge() should copy logical definitions and property chain axioms
#504
dustine32
closed
3 years ago
0
Fix networkx usage
#503
deepakunni3
closed
3 years ago
2
Pass normalized date to GoAssoc for #493
#502
dustine32
closed
3 years ago
6
Add aspect to GoAssociation when parsing GPAD
#501
dustine32
opened
3 years ago
0
bug fixes for writing gaf 2.2
#500
dougli1sqrd
closed
3 years ago
2
Gaf 2.2 writing enabled in ontobio-parse-assocs reveals lack of test and bug in gaf 2.2 writing
#499
dougli1sqrd
closed
3 years ago
0
Remove travis from ontobio
#498
dougli1sqrd
opened
3 years ago
0
protect against a missing key in dataset yaml
#497
dougli1sqrd
closed
3 years ago
1
ontobio validate.py should not grab the "compression" value from the dataset metadata without guards
#496
dougli1sqrd
opened
3 years ago
0
adding version option to convert subcommand in ontobio-parse-assocs
#495
dougli1sqrd
closed
3 years ago
9
Add a version output option for ontobio-parse-assocs.py convert
#494
dougli1sqrd
opened
3 years ago
0
Support YYYY-MM-DD format in test for GORULE:0000029
#493
dustine32
closed
3 years ago
2
adding github action to run tests
#492
dougli1sqrd
closed
3 years ago
0
setting networkx version back to 2.2
#491
dougli1sqrd
closed
3 years ago
1
gpad parser now takes taxon element out of the list instead of passing on the entire list
#490
dougli1sqrd
closed
3 years ago
1
Taxon Curie objects are being leaked into the GPAD output
#489
dustine32
closed
3 years ago
7
Fix slimmer sort bug
#488
kshefchek
closed
3 years ago
0
curies should not parse with spaces in them, tests for new validation
#487
dougli1sqrd
closed
3 years ago
2
add support for q param to golr association fx for monarch
#486
kshefchek
closed
3 years ago
0
Association collections
#485
dougli1sqrd
closed
3 years ago
7
Go site 1453 gpad 2 parser
#484
dougli1sqrd
closed
3 years ago
3
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