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Objective

Stub page for enzyme-variant workflows in BAGEL. This page is currently a source map and will be expanded later.

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Source scripts

  • bagel/scripts/mimic_enzymes/mimic_via_embeddings.py
  • bagel/scripts/technical-report/mimic_oxidoreductase.py
  • bagel/scripts/technical-report/selective_zinc_finger.py

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Current status

  • Status: Stub
  • Expansion state: planned

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Known dependencies

  • BAGEL (biobagel) installation
  • Embedding oracle (ESM2) and optionally folding oracle (ESMFold)
  • Oracle backend: Modal or local GPU

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Expansion checklist

  • Add complete enzyme-variant generation walkthrough
  • Add conservation/immutability setup section
  • Add analysis section for sampled variant pools
  • Add filtering criteria before experimental prioritization