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GenomicMedLab
/
cool-seq-tool
https://coolseqtool.readthedocs.io
MIT License
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docs: fix source link
#331
jsstevenson
closed
5 hours ago
0
Add start/end residue mode parameter
#330
korikuzma
opened
4 days ago
1
"Start chr does not match end chr" when calling `genomic_to_exon_coords` with one position in intronic space
#329
jsstevenson
opened
5 days ago
0
fix(test): remove fixture decorator from get_prioritized_transcripts_from_gene
#328
korikuzma
closed
5 days ago
0
`GenomicData` should include start/end for both start_exon and end_exon
#327
korikuzma
opened
5 days ago
12
feat: make methods in `ManeTranscript` public
#326
korikuzma
closed
6 days ago
4
feat: add option to `g_to_grch38` to return a list of MANE gene(s)
#325
korikuzma
closed
4 days ago
0
fix: correct strand typo
#324
jsstevenson
closed
6 days ago
0
Add option to `g_to_grch38` to return a list of MANE gene(s)
#323
korikuzma
closed
4 days ago
0
feat!: only return cdna representation in `g_to_mane_c`
#322
korikuzma
closed
5 days ago
1
chore: remove unused schemas
#321
korikuzma
closed
6 days ago
0
`g_to_mane_c` should not return genomic representation
#320
korikuzma
closed
5 days ago
0
cicd: allow missing credentials
#319
jsstevenson
closed
1 week ago
0
cicd: use GML reusable-stale action
#318
korikuzma
closed
1 week ago
0
chore: rename optional dependency
#317
korikuzma
closed
2 weeks ago
0
cicd: update precommit
#316
jsstevenson
closed
2 weeks ago
0
cicd: update actions and stale settings from template
#315
jsstevenson
closed
2 weeks ago
0
feat: validate all inputs at once
#314
jsstevenson
closed
2 weeks ago
0
Validate gene/transcript input requirement in genomic_to_transcript_exon_coordinates
#313
jsstevenson
closed
2 weeks ago
0
fix: handle input of alt_ac, not just chromosome
#312
jsstevenson
closed
2 weeks ago
0
`AttributeError` from only supplying `alt_ac` for getting nearest tx junction in `genomic_to_transcript_exon`
#311
jsstevenson
closed
2 weeks ago
0
refactor!: move liftover to separate module
#310
korikuzma
closed
2 weeks ago
0
fix: resolve DataOrientationWarning for pl.DataFrame
#309
korikuzma
closed
3 weeks ago
0
fix: update handling ClientErrors when getting aws secret value
#308
korikuzma
closed
3 weeks ago
0
`SeqRepoAccess` should support `SeqRepoRESTDataProxy`
#307
korikuzma
opened
3 weeks ago
1
refactor: use Assembly enum instead of hard coding
#306
korikuzma
closed
3 weeks ago
2
feat: consistently handle bare and prefixed chromosome numbering
#305
jsstevenson
closed
3 weeks ago
0
chore!: remove FastAPI
#304
korikuzma
closed
3 weeks ago
0
fix: use correct logging setup
#303
jsstevenson
closed
3 weeks ago
0
style: update ruff configs
#302
jsstevenson
closed
3 weeks ago
0
feat!: use setuptools-scm, capture version at package root
#301
jsstevenson
closed
3 weeks ago
5
chore: add stalebot
#300
jsstevenson
closed
4 weeks ago
0
cicd: use builtin token
#299
jsstevenson
closed
4 weeks ago
0
chore: add issue templates
#298
jsstevenson
closed
4 weeks ago
0
feat: enable suppression of latest resource check
#297
jsstevenson
closed
1 month ago
0
fix(docs): correct kwarg in docstring example
#296
korikuzma
closed
1 month ago
0
build: require >= python 3.10
#295
jsstevenson
closed
1 month ago
0
build: pin polars 1.0
#294
jsstevenson
closed
4 weeks ago
0
Double check Polars 1.0 compatibility
#293
jsstevenson
closed
4 weeks ago
0
feat!: change default postgresql port to 5432
#292
korikuzma
closed
1 month ago
0
fix: don't use deprecated columns param
#291
jsstevenson
closed
1 month ago
0
feat!: acquire data with wags-tails, overhaul static file handling
#290
jsstevenson
closed
1 month ago
2
Resolve Polars `columns` deprecation warning
#289
jsstevenson
closed
1 month ago
1
Serve on port 5432 by default
#288
jsstevenson
closed
1 month ago
0
Make default UTA DB URL value programmatically accessible
#287
jsstevenson
closed
1 month ago
0
Provide resource availability check methods
#286
jsstevenson
closed
1 month ago
1
Consider alternatives to custom `genomic` table
#285
korikuzma
opened
3 months ago
1
Don't download resource files on import
#284
jsstevenson
closed
1 month ago
3
Clean up UTA setup instructions
#283
jsstevenson
closed
3 weeks ago
2
Allow initialization of writeable SeqRepo instance
#282
jsstevenson
opened
3 months ago
2
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