Pangene-1.1 (r231)

Notable changes to pangene:

• Improvement: more aggressive pseudogene filtering. This helps the great ape
  graph.

• New feature: added option -E to filter out genes aligned with a single exon
  in all input genomes. Graphs constructed from multi-exon genes are usually
  cleaner.

Notable changes to pangene.js:

• Improvement (call): a new bubble finding algorithm via local graph
  traversal. Added a filter to remove falsely idenrified bubbles.

• New feature (call): output names of assemblies that support each allele.

• New feature: added the getaa subcommand to parse Ensembl and GenCode
  annotations.

(22 February 2024, r231)

Pangene-1.0 (r183)

First release.