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Merged
Created Apr 29, 2020 by Martin Larralde@larraldeMaintainer

CRF / Refiner refactor

  • Overview 0
  • Commits 33
  • Pipelines 1
  • Changes 34

Added

  • Unit tests for gecco.orf, gecco.bgc, gecco.crf.preprocessing modules, and the gecco run command.
  • Missing documentation to all gecco public members.

Changed

  • ProdigalFinder and HMMER now work with SeqRecord instead of raw files, to avoid format conversion issues.
  • Simplify code in ClusterCRF.
  • Make some parts of the API work with iterables instead of lists where possible.

Fixed

  • LOTO cross-validation not working properly on rows with multiple class labels.

Removed

  • demandimport hack (causing issue with some sklearn inherited classes).
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Source branch: refactor