Changelog#

0.4.0#

Released on 2024-08-21 - GitHub - PyPI

What's Changed

  • feat!: update tx segment with new cool-seq-tool structure changes by @katiestahl in #176

Full Changelog: 0.3.0...0.4.0

0.3.0#

Released on 2024-08-15 - GitHub - PyPI

What's Changed

Full Changelog: 0.2.0...0.3.0

0.2.0#

Released on 2024-08-02 - GitHub - PyPI

What's Changed

Full Changelog: 0.1.0...0.1.1

0.1.0#

Released on 2024-07-10 - GitHub - PyPI

What's Changed

Full Changelog: v0.0.27...0.1.0

0.0.30-dev1#

Released on 2023-09-25 - GitHub - PyPI

What's Changed

  • feat: relax requirements on minimum information model by @katiestahl in #131

Full Changelog: v0.0.28-dev1...v.0.0.30-dev1

0.0.28-dev1#

Released on 2023-09-14 - GitHub - PyPI

What's Changed

  • fix: catch alternate gene descriptor structure by @jsstevenson in #125
  • feat: relax requirements on minimum information model components to g… by @katiestahl in #129

Full Changelog: v0.0.28-dev0...v0.0.28-dev1

0.0.28-dev0#

Released on 2023-08-24 - GitHub - PyPI

What's Changed

Full Changelog: v0.0.27...v0.0.28-dev0

0.0.27#

Released on 2023-07-21 - GitHub - PyPI

What's Changed

Full Changelog: v0.0.26...v0.0.27

0.0.26#

Released on 2023-06-26 - GitHub - PyPI

What's Changed

Full Changelog: v0.0.25...v0.0.26

0.0.25#

Released on 2022-11-10 - GitHub - PyPI

What's Changed

New Contributors

Full Changelog: v0.0.24...v0.0.25

0.0.24#

Released on 2022-11-09 - GitHub - PyPI

What's Changed

Full Changelog: v0.0.23...v0.0.24

0.0.23#

Released on 2022-09-23 - GitHub - PyPI

What's Changed

Full Changelog: v0.0.22...v0.0.23

0.0.22#

Released on 2022-09-14 - GitHub - PyPI

What's Changed

  • Build out a few more fusion examples, pulled largely from the fusion docs, and remove the biologically-meaningless ones
  • Make demo data accessible via import
  • Freeze and specify some dependencies to ensure install works
  • Update regulatory element nomenclature and structure per late-June manuscript updates

Full Changelog: v0.0.21...v0.0.22

0.0.21#

Released on 2022-07-26 - GitHub - PyPI

  • fix: junction nomenclature to remove additional _

0.0.20#

Released on 2022-06-06 - GitHub - PyPI

  • feat: incorporate latest assay attribute updates
  • ci: clean up test configs
  • feat: add model schema example checks

0.0.19#

Released on 2022-06-03 - GitHub - PyPI

• add latest information model updates
• use newest uta-tools release

0.0.18#

Released on 2022-05-26 - GitHub - PyPI

What's Changed

Full Changelog: v0.0.17...v0.0.18

0.0.17#

Released on 2022-03-15 - GitHub - PyPI

  • Add CategoricalFusion and AssayedFusion classes
  • Add AssayedFusion evidence and observation classes
  • Update RegulatoryElement properties
  • Update nomenclature generation

0.0.16#

Released on 2022-01-26 - GitHub - PyPI

  • Fix setup bug

0.0.15#

Released on 2022-01-25 - GitHub - PyPI

  • Add method to generate nomenclature consistent with the fusion specification
  • Add importable version value
  • Sequence ID bugfixes
  • Provide biologically meaningful examples

0.0.14#

Released on 2021-11-18 - GitHub - PyPI

  • Update dependencies

0.0.13#

Released on 2021-11-17 - GitHub - PyPI

  • Fix one off position error
  • Change various domain references to "functional_domains" and "FunctionalDomain"
  • Add LocationDescriptor to FunctionalDomain entities

0.0.12#

Released on 2021-10-30 - GitHub - PyPI

  • Add regulatory element constructor

0.0.11#

Released on 2021-10-28 - GitHub - PyPI

What's Changed

Full Changelog: v0.0.10...v0.0.11

0.0.10#

Released on 2021-10-26 - GitHub - PyPI

  • GenomicRegionComponent -> TemplatedSequenceComponent
  • Split TranscriptSegmentComponent.component_genomic_region into TranscriptSegmentComponent.component_genomic_start and TranscriptSegmentComponent.component_genomic_end, each of which should be a single-coordinate LocationDescriptor
  • Exon Start and Exon End can be optional
  • Bring in pipeline related functions from Fusion Curation
  • Use uta_tools for coordinate fetching
  • Add gene normalizer
  • Generate ga4gh digest for sequence_id
  • Add SequenceLocation location_id

0.0.9#

Released on 2021-09-30 - GitHub - PyPI

  • add any_gene component
  • add sequence_id to SequenceLocation objects
  • temporarily fix jsonschema dependency issue

0.0.8#

Released on 2021-09-19 - GitHub - PyPI

  • Linker sequence accepts the following regex: ^[A-Za-z*\-]*$

0.0.7#

Released on 2021-08-31 - GitHub - PyPI

  • misc bugfixes

0.0.6#

Released on 2021-08-31 - GitHub - PyPI

  • Update to latest VRS/VRSATILE requirements
  • Import classes from VRS-Pydantic rather than defining them locally

0.0.5#

Released on 2021-08-26 - GitHub - PyPI

  • new name
  • significant model changes to better align with VRS, VRSATILE specifications

0.0.3#

Released on 2021-08-13 - GitHub - PyPI

  • Model for structuring gene fusions