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Updated: Feb 17, 2026

High-resolution Single Particle Analysis from Electron Cryo-microscopy Images Using SPHIRE
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phaser: a unified and extensible framework for fast electron ptychography.

Colin Gilgenbach1, Menglin Zhu1, James M LeBeau1

  • 1Department of Materials Science & Engineering, Massachusetts Institute of Technology, Cambridge, MA USA.

Npj Computational Materials
|February 16, 2026
PubMed
Summary
This summary is machine-generated.

Phaser is a new Python package for ptychographic imaging, offering a unified interface for various algorithms. This open-source software enhances experimental reconstructions and accelerates materials science applications.

Keywords:
Materials scienceMathematics and computingOptics and photonics

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Area of Science:

  • Materials Science
  • Computational Imaging
  • Physics

Background:

  • Ptychography is a powerful lensless imaging technique.
  • Existing algorithms can be complex to implement and computationally intensive.
  • A unified and flexible software package is needed to advance ptychographic research.

Purpose of the Study:

  • Introduce phaser, an open-source Python package for ptychographic reconstruction.
  • Provide a unified interface for conventional and autodifferentiation-based algorithms.
  • Enhance the practicality and robustness of experimental ptychographic reconstructions.

Main Methods:

  • Developed a unified interface for diverse ptychographic algorithms.
  • Implemented features like mixed-state probe, probe position correction, and multislice ptychography.
  • Supported multiple computational backends and a declarative reconstruction format.

Main Results:

  • Demonstrated successful reconstructions across various experimental datasets.
  • Analyzed the impact of regularization on convergence and reconstruction quality.
  • Benchmarked reconstruction speed for single-slice and multislice methods.

Conclusions:

  • Phaser offers a flexible and robust platform for ptychographic data analysis.
  • The software facilitates faster application and development of ptychographic methods.
  • Phaser is poised to accelerate advancements in materials science imaging.