0.8.0

What's Changed

• Ensure proper gene symbol comparison by @jarbesfeld in #373
• fix!: Expect user to supply valid, case-sensitive HGNC symbol by @jarbesfeld in #375

Full Changelog: 0.7.1...0.8.0

0.7.1

What's Changed

• refactor!: rename ExonCoord to _ExonCoord to indicate internal use by @korikuzma in #357
• refactor: reorder classes and methods in exon_genomic_coords module by @korikuzma in #358
• refactor: rename is_start kwarg in private methods to is_seg_start by @korikuzma in #359
• refactor: rename _get_alt_ac_start_and_end + flatten output by @korikuzma in #360
• refactor: remove duplicate genomic_ac check by @korikuzma in #365
• Do not require gene when genomic accession and transcript are provided to genomic_to_tx_segment by @jarbesfeld in #369
• fix: make gene optional param for converting genomic coords as long a… by @katiestahl in #370

Full Changelog: 0.7.0...0.7.1

0.7.0

What's Changed

• docs: fix source link by @jsstevenson in #331
• docs: remove VRS schema support section by @korikuzma in #333
• refactor: remove unnecessary literal from AnnotationLayer enum by @korikuzma in #349
• feat: enable direct import of CST from package root by @jsstevenson in #353
• docs: link to stable, not latest by @jsstevenson in #355
• feat!: Return Pydantic models instead of dicts in UtaDatabase by @korikuzma in #334
• feat!: rename residue mode to coordinate type by @korikuzma in #337
• feat!: rename ExonGenomicCoordsMapper methods by @korikuzma in #338
• feat!: remove UtaDatabase.get_tx_exons + cleanup exon work by @korikuzma in #347
• feat!: remove UtaDatabase.get_tx_exons_genomic_coords by @korikuzma in #348
• refactor: remove optional strand field from genomic_to_tx_segment by @korikuzma in #340
• feat!: rename start/end to genomic_start/genomic_end in genomic_to_tx_segment by @korikuzma in #343
• feat!: remove optional coordinate_type from genomic_to_tx_segment by @korikuzma in #344
• feat!: return Pydantic model in get_alt_ac_start_or_end by @korikuzma in #350
• feat!: return Pydantic model in UtaDatabase.get_tx_exon_aln_v_data by @korikuzma in #351
• feat!: update ExonGenomicCoordsMapper + UtaDatabase by @korikuzma and @jarbesfeld in #352
• fix: genomic accession mismatch when getting nearest tx junction by @korikuzma in #356

Full Changelog: 0.6.0...0.7.0

0.6.0

What's Changed

• chore: remove unused schemas by @korikuzma in #321
• feat: make methods in ManeTranscript public by @korikuzma in #326
• fix(test): remove fixture decorator from get_prioritized_transcripts_from_gene by @korikuzma in #328
• feat!: only return cdna representation in g_to_mane_c by @korikuzma in #322
• feat: add option to g_to_grch38 to return a list of MANE gene(s) by @korikuzma in #325

Full Changelog: 0.5.1...0.6.0

0.5.1

What's Changed

• cicd: update actions and stale settings from template by @jsstevenson in #315
• cicd: update precommit by @jsstevenson in #316
• chore: rename optional dependency by @korikuzma in #317
• cicd: use GML reusable-stale action by @korikuzma in #318
• cicd: allow missing credentials by @jsstevenson in #319
• fix: correct strand typo by @jsstevenson in #324

Full Changelog: 0.5.0...0.5.1

0.5.0

What's Changed

• feat!: use setuptools-scm, capture version at package root by @jsstevenson in #301
• fix: use correct logging setup by @jsstevenson in #303
• chore!: remove FastAPI by @korikuzma in #304
• feat: consistently handle bare and prefixed chromosome numbering by @jsstevenson in #305
• refactor: use Assembly enum instead of hard coding by @korikuzma in #306
• fix: update handling ClientErrors when getting aws secret value by @korikuzma in #308
• fix: resolve DataOrientationWarning for pl.DataFrame by @korikuzma in #309
• fix: handle input of alt_ac, not just chromosome by @jsstevenson in #312
• refactor!: move liftover to separate module by @korikuzma in #310
• feat: validate all inputs at once by @jsstevenson in #314

Full Changelog: 0.4.1...0.5.0

0.4.1

What's Changed

• fix: scope of resp if breakpoint does not occur on an exon by @jarbesfeld in #274
• docs: add badges by @jsstevenson in #275
• chore: update license by @jsstevenson in #276
• cicd: test in python 3.12 by @jsstevenson in #277
• build: update build metadata by @jsstevenson in #278
• cicd: add priority label check by @jsstevenson in #279
• docs: add badges to main readme by @jsstevenson in #280
• docs: fix residue mode illustration rendering by @jsstevenson in #281
• fix: don't use deprecated columns param by @jsstevenson in #291
• feat!: change default postgresql port to 5432 by @korikuzma in #292
• build: require >= python 3.10 by @jsstevenson in #295
• fix(docs): correct kwarg in docstring example by @korikuzma in #296
• feat!: acquire data with wags-tails, overhaul static file handling by @jsstevenson in #290
• build: pin polars 1.0 by @jsstevenson in #294
• chore: add issue templates by @jsstevenson in #298
• cicd: use builtin token by @jsstevenson in #299
• chore: add stalebot by @jsstevenson in #300
• style: update ruff configs by @jsstevenson in #302

Full Changelog: 0.4.0-dev3...0.4.1

0.4.0-dev3

What's Changed

• build: pin ruff to v0.2.0 by @korikuzma in #272
• feat: Determine adjacent exon for fusions with non-exonic breakpoint by @jarbesfeld in #268

New Contributors

• @jarbesfeld made their first contribution in #268

Full Changelog: 0.4.0-dev2...0.4.0-dev3

0.4.0-dev2

What's Changed

• fix: StrEnum to Enum for python < 3.11 by @korikuzma in #258
• docs: add generated changelog by @jsstevenson in #259
• style: add additional ruff checks by @jsstevenson in #260
• docs: fix readme links to docs by @jsstevenson in #262
• build: replace pyliftover with agct to improve performance by @korikuzma in #264
• fix: package version by @korikuzma in #265

Full Changelog: 0.4.0-dev1...0.4.0-dev2

0.4.0-dev1

What's Changed

• fix: include package data by @korikuzma in #257

Full Changelog: 0.4.0-dev0...0.4.0-dev1