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Updated: Apr 13, 2026

Picometer-Precision Atomic Position Tracking through Electron Microscopy
Published on: July 3, 2021
Hybrid physics-machine learning models for quantitative electron diffraction refinements
Shreshth A Malik1, Tiarnan A S Doherty2,3, Benjamin Colmey4
1OATML, Department of Computer Science, University of Oxford, Oxford, UK.
This study introduces a hybrid physics-machine learning framework for electron microscopy simulations. It improves crystal structure refinement by learning experimental effects directly from data, achieving state-of-the-art results.
Area of Science:
- Materials Science
- Computational Physics
- Crystallography
Background:
- Accurate electron microscopy simulations are crucial for crystal structure refinement.
- Modeling real-world experimental effects analytically remains a significant challenge.
- Existing methods struggle with scalability and accurately representing experimental variables.
Purpose of the Study:
- To develop a novel hybrid physics-machine learning framework for electron microscopy simulations.
- To enable joint optimization of physical parameters and experimental variables through differentiable simulations.
- To enhance the accuracy and scalability of quantitative crystal structure refinements.
Main Methods:
- Integration of differentiable physical simulations with neural networks.
- Leveraging automatic differentiation for gradient-based optimization.
- Application to three-dimensional electron diffraction (3D-ED) structure refinement.
Main Results:
- Achieved state-of-the-art refinement performance on synthetic and experimental datasets.
- Successfully recovered atomic positions, thermal displacements, and complex thickness profiles with high fidelity.
- Demonstrated superior scalability compared to traditional second-order methods.
Conclusions:
- Differentiable hybrid modeling is a powerful paradigm for quantitative electron microscopy.
- The framework accurately models complex experimental effects, overcoming analytical limitations.
- The modular architecture is extensible to other physical phenomena and microscopy techniques.
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