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v0.3.0

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@kylertaylor kylertaylor released this 14 Jul 14:49

Added

  • Support indel stitching in AlphaGenome variant prediction and enable it by
    default.
  • Support calculating variant score quantiles.
  • Export .pyi files for generated protocol buffers.

Changed

  • Improvements for fine-tuning (per-head loss weights, target smoothing,
    splicing ROPE initialization and BatchNorm training mode)
  • Migrate to use FastaExtractor from alphagenome.
  • Use variant.start to calculate the middle of the center mask.
  • Fix negative strand bug for score_interval and score_variant.
  • Update type annotations and fix typing errors.