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biolink
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biolink-model-toolkit
A collection of useful python functions for looking up information and working with the Biolink Model
https://biolink.github.io/biolink-model-toolkit/
BSD 3-Clause "New" or "Revised" License
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Given a URI, can on get the CURIE (or vice versa?)
#76
RichardBruskiewich
closed
2 years ago
1
How can category be inferred for a bare URI or CURIE? Could a search of id_prefixes in their category class context allow this inference?
#75
RichardBruskiewich
closed
2 years ago
1
remove bte dependency
#74
sierra-moxon
closed
2 years ago
1
update linkml to 1.1.18
#73
sierra-moxon
closed
2 years ago
1
versions
#72
cbizon
closed
2 years ago
1
Can't install requirements
#71
cbizon
closed
2 years ago
0
add method to remove munged slots from alias calculation
#70
sierra-moxon
closed
2 years ago
1
refactor generator to handle mangled slot inheritance
#69
sierra-moxon
closed
2 years ago
1
Add schemaview for internal ancestors and descendants methods fixes #66 fixes #65 fixes #48 fixes #46
#68
sierra-moxon
closed
2 years ago
2
update linkml and biolink-model
#67
sierra-moxon
closed
2 years ago
1
bmt.readthedocs.io link in README leads to 404
#66
slobentanzer
closed
2 years ago
1
add function or documentation on how to get inverses with bmt
#65
colleenXu
closed
2 years ago
0
add function to get mapping by prefix fixes #61
#64
sierra-moxon
closed
2 years ago
1
black formatting changes
#63
sierra-moxon
closed
2 years ago
1
add tox, add biolink-2.2.3 support
#62
sierra-moxon
closed
2 years ago
1
add functionality to return biolink class for any curie
#61
sierra-moxon
closed
2 years ago
0
add biolink 2.2 changes to BMT
#60
GregHydeDartmouth
closed
2 years ago
2
Cannot import bmt in python: TypeError: dataclasses_init_fn_with_kwargs() missing 1 required positional argument: 'globals'
#59
ehinderer
closed
1 year ago
2
ModuleNotFoundError for linkml_runtime
#58
caufieldjh
closed
2 years ago
2
added hyperlink for Biolink Model
#57
nlharris
closed
3 years ago
1
add where github can see the generated doc
#56
sierra-moxon
closed
3 years ago
1
add sphinx for readthedocs
#55
sierra-moxon
closed
3 years ago
1
Optionally provide aliases with get_descendants(), etc.
#54
patrickkwang
closed
2 years ago
2
refactor mixin ancestors to not exclude sibling mixins
#53
sierra-moxon
closed
3 years ago
1
Fix sentence-to-camel case conversion
#52
patrickkwang
closed
3 years ago
1
Fix camel-case name parsing
#51
patrickkwang
closed
3 years ago
1
Camel-case class names are not converted to CURIEs well
#50
patrickkwang
closed
3 years ago
1
Camel-case names with acronyms are not parsed well
#49
patrickkwang
closed
3 years ago
0
Raise error for unrecognized element name
#48
patrickkwang
closed
2 years ago
1
Documentation The technical documentation for BMT can be found at bmt.readthedocs.io
#47
RichardBruskiewich
closed
3 years ago
5
siRNA and microRNA elements missing?
#46
CaseyTa
closed
2 years ago
0
fixing mixin calls to respect the passed in mixin variable
#45
sierra-moxon
closed
3 years ago
1
fix get_element() method for use in KGX
#44
sierra-moxon
closed
3 years ago
0
fixing the get_element() function to work with 'molecular_function' fixes #44
#43
sierra-moxon
closed
3 years ago
1
update linkml requirement to linkml 1.0.0
#42
sierra-moxon
closed
3 years ago
0
Toolkit import error using 0.6.0 distro for BMT
#41
GregHydeDartmouth
closed
3 years ago
3
add mixin traversal to ancestors and decedents methods fixes #27 fixes #30 fixes #33 fixes #36 fixes #35 fixes #37 fixes #42
#40
sierra-moxon
closed
3 years ago
1
add a function to return the preferred prefix
#39
sierra-moxon
closed
3 years ago
2
add function to return all the mixins for a particular entity
#38
sierra-moxon
closed
3 years ago
0
add parameter to get_descendents and get_anscestors to allow mixins to be returned
#37
sierra-moxon
closed
3 years ago
0
Biolink Model version reporting
#36
RichardBruskiewich
closed
3 years ago
0
migrate travis to github actions
#35
sierra-moxon
closed
3 years ago
0
fixes #33 -add jupyter notebook for demo.
#34
sierra-moxon
closed
3 years ago
2
add jupyter notebook to examples
#33
sierra-moxon
closed
3 years ago
0
update BMT to use linkml (from biolinkml)
#32
sierra-moxon
closed
3 years ago
1
migrate to linkml from biolinkml
#31
sierra-moxon
closed
3 years ago
2
add function to return the "canonical predicate"
#30
sierra-moxon
closed
3 years ago
0
add "is_mixin" and "has_inverse"
#29
sierra-moxon
closed
3 years ago
0
add is_mixin and has_inverse helper methods
#28
sierra-moxon
closed
3 years ago
2
Are mixins ancestors?
#27
cbizon
closed
3 years ago
2
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