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microbiomedata
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nmdc-ontology
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subset with OAK not SPARQL (for LLM training)
#69
turbomam
opened
3 months ago
0
LLM scripts intermediate files makefile targets and outputs
#68
turbomam
opened
4 months ago
1
Make `experimental_factor` `multivalued` with a range of `ControlledIdentifiedTermValue`
#67
turbomam
opened
4 months ago
1
prepare changesheets for problematic triads in MongoDB
#66
turbomam
opened
4 months ago
9
ask claude to generate OAK or SPARQL queries; or justifications for it's responses
#65
turbomam
opened
5 months ago
0
provide claude with negative examples
#64
turbomam
opened
5 months ago
0
feed back discovered MIxS/EnvO etc subsets back into this ontology
#63
turbomam
opened
5 months ago
0
Bill Duncan as an author
#62
turbomam
closed
5 months ago
1
LLM tools should embed data X from a file but iterate over data Y
#61
turbomam
opened
5 months ago
0
LLM scripts should save to a file not print to console
#60
turbomam
opened
5 months ago
0
add data assets and prepare for local/.env
#59
turbomam
closed
4 months ago
0
Add Bill as an author in `pyproject.toml`
#58
turbomam
opened
5 months ago
2
tidy up robot remove output
#57
turbomam
closed
5 months ago
0
Save scripts etc for LLM alignment of MIxS and EnvO terms in this repo
#56
turbomam
closed
4 months ago
0
remove role cycle
#55
turbomam
closed
5 months ago
0
Now that we're importing ontology base versions, do extracts to get labels and heriarcy for `owl:Things`?
#54
turbomam
opened
5 months ago
0
import base ontologies if possible
#53
turbomam
closed
5 months ago
0
detection of cycles
#52
turbomam
closed
5 months ago
0
Modify imports merging to use 'base' artifacts?
#51
turbomam
closed
5 months ago
0
Use robot mirroring to make iterative builds of this ontology faster?
#50
turbomam
opened
5 months ago
6
subClassOf cycles in nmdco-classes.json breaks the nmdc-server ingest
#49
turbomam
closed
5 months ago
1
document how to deploy an OLS instance (locally or on SPIN)
#48
turbomam
opened
5 months ago
0
new extract/import in nmdco.Makefile
#47
turbomam
closed
5 months ago
0
Add `UBERON:0001153` 'caecum' and `UBERON:0035118` 'material entity in digestive tract' and release
#46
turbomam
closed
5 months ago
0
add in classes from qc-reports/problematic_triad_summary.yaml as appropriate
#45
turbomam
opened
5 months ago
1
no relation graph
#44
turbomam
closed
5 months ago
5
stream pool etc 2023-08-25T12:17:42.901Z
#43
turbomam
closed
6 months ago
0
rebuild after fixing dates in EnvO
#42
turbomam
closed
6 months ago
0
see problematic_triad_* files for FMA problems
#41
turbomam
closed
6 months ago
0
minimized tool.poetry.dependencies
#40
turbomam
closed
6 months ago
0
problematic env_braod_scale and env_material
#39
turbomam
closed
6 months ago
0
report all invalid biomes and environmental mediums
#38
turbomam
closed
6 months ago
0
What is 'root node', `http://purl.obolibrary.org/obo/NMDCO_00000000` and why isn't it the root?
#37
turbomam
closed
5 months ago
3
sorted table of NMDCO EnvO classes
#36
turbomam
closed
6 months ago
0
Decrease the number of methods used for QC
#35
turbomam
opened
6 months ago
0
report of EnvO classes in NMDCO by id owner
#34
turbomam
closed
6 months ago
0
DO NOT MERGE remove or modify usages of non redundant relation graph output
#33
turbomam
closed
5 months ago
0
remove or modify usages of "non-redundant" relation-graph output
#32
turbomam
closed
5 months ago
3
download don't build released envo.db
#31
turbomam
closed
6 months ago
0
use `semsql download` to download released envo.db instead of building it
#30
turbomam
closed
6 months ago
0
report/count name correction
#29
turbomam
closed
6 months ago
0
reports by robot not python
#28
turbomam
closed
6 months ago
0
data-vs-ontology-reports
#27
turbomam
closed
6 months ago
0
get a report of envo terms with ids in the range of nmdc or nmdc contributors
#26
turbomam
closed
6 months ago
0
get a report of EnvO terms with ids in the range of NMDC or NMDC contributors
#25
turbomam
closed
6 months ago
0
more informative count table headers
#24
turbomam
closed
6 months ago
0
triad and term reports
#23
turbomam
closed
6 months ago
0
Identify what terms need to be included in this ontology by querying the NMDC database
#22
turbomam
closed
6 months ago
1
make a release
#21
turbomam
closed
6 months ago
0
make a release
#20
turbomam
closed
6 months ago
0
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