0.10.0

What's Changed

• build: Update cst and acgt versions by @jarbesfeld in #342
• feat: Add transcript_junction_builder module by @jarbesfeld in #345
• build: Update vrs python version by @jarbesfeld in #347
• cicd: update linting, git hooks, etc by @jsstevenson in #348
• docs: Add prek to docs by @jarbesfeld in #349
• build: Update package versions and civic cache by @jarbesfeld in #352
• build: Add pyYAML dependency by @jarbesfeld in #355
• fix: Update civicpy version + cache by @jarbesfeld in #354
• fix!: Add new byte size limit for harvester methods by @jarbesfeld in #357
• chore: Update zenodo by @jarbesfeld in #358
• feat: Add support for docker container by @jarbesfeld in #351
• feat: Add FUSOR demonstrative analysis by @jarbesfeld in #333
• feat: Add FUSOR Genie Analysis and make corresponding edits to GENIE translator by @jarbesfeld in #341
• docs: Update notebooks documentation by @jarbesfeld in #359

Full Changelog: 0.9.2...0.10.0

0.9.2

What's Changed

• build: Update to newest vrs-python version and update model validators by @jarbesfeld in #338
• feat: Add transcript information in output by @jarbesfeld in #339

Full Changelog: 0.9.1...0.9.2

0.9.1

What's Changed

• docs: Add fixtures README by @jarbesfeld in #334
• feat: Add additional parameters and validator for regulatory element by @jarbesfeld in #336

Full Changelog: 0.9.0...0.9.1

0.9.0

What's Changed

• docs: Update default port for gene normalizer by @jarbesfeld in #297
• fix: Catch errors from create_db when gene normalizer db unavailable by @zealws in #300
• fix: Use Assembly value as identifier, not name by @zealws in #299
• feat: add harvester method to return both translated and untranslated records by @zealws in #303
• fix!: Remove value from evidence matching notebook by @jarbesfeld in #309
• feat!: Load in accepted fusion variants directly in CIViC harvester by @jarbesfeld in #306
• feat!: Allow for coordinate type to be supplied in FUSOR methods by @jarbesfeld in #312
• feat!: Remove cls.__name__ comparator for AbstractFusion class by @jarbesfeld in #314
• feat!: Add support for Internal Tandem Duplications by @jarbesfeld in #274
• feat!: Add 9/4/25 MOA release to test fixtures by @jarbesfeld in #319
• feat!: Break up harvester table processing by @zealws in #322
• feat!: Remove fusor.tools.translate_identifier by @jarbesfeld in #324
• feat!: Report fusion match quality by @jarbesfeld in #311
• feat!: Remove MapSplice and FusionMap translators by @jarbesfeld in #285
• feat!: Update CIViC error handling in translator by @jarbesfeld in #321
• feat!: Remove specific database fields from CategoricalFusion class by @jarbesfeld in #323
• feat!: Remove CoolSeqTool call from check_data_resources by @jarbesfeld in #328
• chore: Create CODEOWNERS file by @jarbesfeld in #329
• refactor: change model_validator mode='before' to mode='after' by @korikuzma in #330
• feat: Refactor translator tests and update Arriba ITD by @jarbesfeld in #325
• feat: Add is_exonic field to genomic breakpoints by @jarbesfeld in #326

New Contributors

• @zealws made their first contribution in #300

Full Changelog: 0.8.0...0.9.0

0.8.0

What's Changed

• fix!: Remove (::) divider for inferred fusions by @jarbesfeld in #268
• fix!: Modify fixtures and tests to reduce testing time by @jarbesfeld in #271
• docs: Ensure documentation is up-to-date by @jarbesfeld in #272
• style: update ruff and precommit by @jsstevenson in #275
• feat!: Create separate translator classes by @jarbesfeld in #273
• fix!: Add offset to genomic breakpoint calculation in civic, check if start and stop are provided given an exon number by @jarbesfeld in #277
• feat!: Add support for Molecular Oncology Almanac (MOA) by @jarbesfeld in #281
• feat: Update contig sequence regex by @jarbesfeld in #283
• fix!: Fix Cicero test fixture and translator test coordinates by @jarbesfeld in #290
• feat: Enable configurable data location by @jarbesfeld in #291
• feat: Save cached files to evidence_matching folder by @jarbesfeld in #296

Full Changelog: 0.7.0...0.8.0

0.7.0

What's Changed

• feat!: Add module for fusion matching by @jarbesfeld in #246
• docs: Update examples in readthedocs by @jarbesfeld in #257
• feat!: Add translation step to harvester methods by @jarbesfeld in #261
• fix(test): Add translator instance to fusion matching test by @jarbesfeld in #266
• feat!: Update nomenclature to allow for gene symbols without identifiers by @jarbesfeld in #265

Full Changelog: 0.6.0...0.7.0

0.6.0

What's Changed

• build: Update CST and gene-normalizer versions by @jarbesfeld in #244
• fix!: Update EnFusion harvester by @jarbesfeld in #250
• feat: Add VICC Nomenclature string to each translated fusion event by @jarbesfeld in #248
• build: Update civicpy version to 5.0 by @jarbesfeld in #252
• docs: Add new doc files by @jarbesfeld in #254
• feat!: Add strand to TranscriptSegmentElement output by @jarbesfeld in #263

Full Changelog: 0.5.0...0.6.0

0.5.0

What's Changed

• build: Update cool-seq-tool version by @jarbesfeld in #192
• feat: Add translator modules for JAFFA and STAR-Fusion fusion detection algorithms by @jarbesfeld in #193
• docs: fix link typo by @jsstevenson in #195
• chore: add acceptance criteria to issue templates by @jsstevenson in #199
• cicd: update precommit configs by @jsstevenson in #198
• style: update ruff configs by @jsstevenson in #197
• chore: update gitignore by @jsstevenson in #196
• feat!: change fusion catcher detection algorithm input parameters by @jarbesfeld in #201
• test(fix): correct enum usage to resolve ValueError in translator tests by @korikuzma in #202
• feat!: change arriba fusion detection algorithm input parameters by @jarbesfeld in #204
• feat!: change CICERO fusion detection algorithm input parameters by @jarbesfeld in #206
• feat!: change EnFusion fusion detection algorithm input parameters by @jarbesfeld in #208
• feat!: change Genie fusion detection algorithm input parameters by @jarbesfeld in #210
• fix!: Remove coordinate correction from fusion catcher translator by @jarbesfeld in #212
• fix: Add gene symbol check in translator methods by @jarbesfeld in #214
• build!: require python >= 3.11 by @jarbesfeld in #217
• build: update CST version and pin ga4gh.vrs version by @jarbesfeld in #216
• feat: Add new metadata classes for AssayedFusion events by @jarbesfeld in #219
• feat!: Add support for coordinate type in translators by @jarbesfeld in #221
• feat: add AnchoredReads and ReadData models by @jarbesfeld in #223
• feat: Update regex for contig sequence by @jarbesfeld in #226
• feat!: Incorporate metadata classes into translators by @jarbesfeld in #225
• feat!: Add pydantic classes for output from fusion callers by @jarbesfeld in #228
• build: Update cool-seq-tool version by @jarbesfeld in #232
• feat!: Add methods for extracting data from fusion callers by @jarbesfeld in #230
• feat!: Add support for UnknownGeneElements by @jarbesfeld in #234
• build!: Update VRS-Python, gene normalizer, and cool-seq-tool versions by @jarbesfeld in #238
• feat: Add CIViC to CategoricalFusion object translator by @jarbesfeld in #236
• feat!: Add support for LinkerElement in Arriba translator by @jarbesfeld in #241

Full Changelog: 0.4.4...0.5.0

0.4.4

What's Changed

• build: update cool-seq-tool version by @katiestahl in #189

Full Changelog: 0.4.3...0.4.4

0.4.3

What's Changed

• fix: return correct message when validation error occurs by @katiestahl in #188

Full Changelog: 0.4.2...0.4.3