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DeepFocus: fast focus and astigmatism correction for electron microscopy

Author

Listed:
  • P. J. Schubert

    (Max Planck Institute for Biological Intelligence)

  • R. Saxena

    (Max Planck Institute for Biological Intelligence)

  • J. Kornfeld

    (Max Planck Institute for Biological Intelligence)

Abstract

High-throughput 2D and 3D scanning electron microscopy, which relies on automation and dependable control algorithms, requires high image quality with minimal human intervention. Classical focus and astigmatism correction algorithms attempt to explicitly model image formation and subsequently aberration correction. Such models often require parameter adjustments by experts when deployed to new microscopes, challenging samples, or imaging conditions to prevent unstable convergence, making them hard to use in practice or unreliable. Here, we introduce DeepFocus, a purely data-driven method for aberration correction in scanning electron microscopy. DeepFocus works under very low signal-to-noise ratio conditions, reduces processing times by more than an order of magnitude compared to the state-of-the-art method, rapidly converges within a large aberration range, and is easily recalibrated to different microscopes or challenging samples.

Suggested Citation

  • P. J. Schubert & R. Saxena & J. Kornfeld, 2024. "DeepFocus: fast focus and astigmatism correction for electron microscopy," Nature Communications, Nature, vol. 15(1), pages 1-10, December.
    • Handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-45042-3
    DOI: 10.1038/s41467-024-45042-3
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    References listed on IDEAS

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    1. Yunfeng Hua & Philip Laserstein & Moritz Helmstaedter, 2015. "Large-volume en-bloc staining for electron microscopy-based connectomics," Nature Communications, Nature, vol. 6(1), pages 1-7, November.
    2. Steffen Klein & Mirko Cortese & Sophie L. Winter & Moritz Wachsmuth-Melm & Christopher J. Neufeldt & Berati Cerikan & Megan L. Stanifer & Steeve Boulant & Ralf Bartenschlager & Petr Chlanda, 2020. "SARS-CoV-2 structure and replication characterized by in situ cryo-electron tomography," Nature Communications, Nature, vol. 11(1), pages 1-10, December.
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