The Accuracy Paradox: Empirical Diagnostic of Default Decision Thresholds in Multi-Label Enzyme Commission Prediction [With Code]

arXiv:2609.07897 · cs.LG, cs.AI, q-bio.QM · Submitted 2026-09-07 · Read on arXiv

cs.LG, cs.AI, q-bio.QM

Submitted: 2026-09-07

Updated: 2026-09-07

Comments: 11 pages, 4 figures,Enzyme Commission prediction, multi-label classification, class imbalance, threshold optimization, conformal calibration, accuracy paradox, bio-data, applied machine learning, bioinformatics. imbalanced bio-data, model diagnostic, performance metrics, open-source pipeline

License: http://arxiv.org/licenses/nonexclusive-distrib/1.0/

Terminology

• Accuracy — 3× in this paper · explained in 1 episode
• Enzyme Commission — 2× in this paper
• AUC — 1× in this paper · explained in 2 episodes
• Calibration — 1× in this paper · explained in 7 episodes
• Redundancy — 1× in this paper · explained in 2 episodes

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