1.2.0 (2018-07-14)

Changes since 1.1.3 (2018-07-01).

Special Attention

This release contains a significant improvement in the accuracy of projecting variants in the vicinity of genome-transcript alignment gaps. Previously, hgvs handled only a limited number of cases. The new AlignmentMapper now handles all cases identified for projecting substitution, insertion, and deletion variants in the context of substituion, insertion, and deletion alignment discrepancies. [Credit: Meng Wang]

Deprecations and Removals

AlignmentMapper replaces IntervalMapper and TranscriptMapper. The latter are now deprecated and will be removed in the next release.

Bug Fixes

  • Fixes #497: Honor normalize switch in AssemblyMapper [61d363e]

New Features

  • Closes #208: Rewrite coordination mapping to provide better support for projecting variants in the vicinity of transcript-alignment gaps.