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TomoPyUI: a user-friendly tool for rapid tomography alignment and reconstruction.

Samuel S Welborn1, Molleigh B Preefer2, Johanna Nelson Weker2

  • 1Department of Materials Science and Engineering, University of Pennsylvania, Philadelphia, PA 19104, USA.

Journal of Synchrotron Radiation
|June 26, 2024
PubMed
Summary

TomoPyUI simplifies complex synchrotron and neutron computed tomography data processing. This visual Python interface streamlines workflows from data import to 3D reconstruction within a Jupyter environment.

Keywords:
JupyterTomoPyTomoPyUIalignmentcomputed tomographyreconstruction

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Area of Science:

  • Scientific computing
  • Data processing
  • Image analysis

Background:

  • Computed tomography (CT) data management is complex and time-consuming.
  • Manual processing and long computation times hinder scientific workflows.
  • Existing software lacks integrated, user-friendly interfaces for tomography data.

Purpose of the Study:

  • Introduce TomoPyUI, a visual interface for the TomoPy package.
  • Simplify and organize the tomography data processing pipeline.
  • Enhance user experience for synchrotron and neutron CT data analysis.

Main Methods:

  • Developed a graphical user interface (GUI) for the TomoPy software.
  • Integrated data import, preprocessing, alignment, and 3D reconstruction.
  • Implemented systematic data/metadata storage and inspection tools within a Jupyter environment.

Main Results:

  • TomoPyUI provides a guided, visual workflow for tomography data processing.
  • Improved data organization and reduced interruptions through systematic storage.
  • Demonstrated TomoPyUI's effectiveness with real data from SSRL beamline 6-2c.

Conclusions:

  • TomoPyUI significantly streamlines the management and processing of CT data.
  • The software enhances accessibility and efficiency for researchers using synchrotron and neutron sources.
  • TomoPyUI offers a robust solution for complex tomography data analysis.