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How to Train a Shallow Ensemble
Moritz Schäfer1,2, Matthias Kellner1, Johannes Kästner2
1Laboratory of Computational Science and Modeling, Institut des Matériaux, École Polytechnique Fédérale de Lausanne, Lausanne 1015, Switzerland.
Journal of Chemical Theory and Computation
|May 8, 2026
Summary
Shallow ensembles improve uncertainty quantification in machine learning potentials. Fine-tuning these models offers comparable calibration to training from scratch, significantly reducing computational cost.
Area of Science:
- Computational Materials Science
- Machine Learning
- Quantum Chemistry
Background:
- Shallow ensembles offer efficient uncertainty quantification for machine learning interatomic potentials due to shared model weights.
- Balancing calibration performance and computational cost in training shallow ensembles is crucial for practical applications.
Purpose of the Study:
- To systematically investigate training strategies for shallow ensembles to optimize uncertainty quantification.
- To evaluate efficient protocols for training shallow ensembles, minimizing computational overhead while maintaining calibration quality.
Main Methods:
- Explicit optimization of negative log-likelihood (NLL) loss for improved calibration.
- Modeling force uncertainties via NLL objective for reliable calibration.
- Full-model fine-tuning of pre-trained shallow ensembles as an efficient training protocol.
Main Results:
- Explicit NLL optimization enhances calibration compared to random initialization or Laplace approximation.
- Training solely on energy objectives leads to miscalibrated force estimates.
- Full-model fine-tuning achieves calibration quality comparable to training from scratch, reducing training time by up to 96%.
Conclusions:
- Explicitly modeling force uncertainties via NLL is essential for reliable calibration in machine learning potentials.
- Full-model fine-tuning presents an efficient and effective protocol for training shallow ensembles.
- Practical guidelines are established for reliable uncertainty quantification across diverse materials in atomistic machine learning.
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