pynxtools-em is a pynxtools reader plugin for electron microscopy (EM) data.

This pynxtools plugin was generated with cookiecutter using the pynxtools-plugin-template template.

It is recommended to use python 3.12 with a dedicated virtual environment for this package. Learn how to manage python versions and virtual environments.

This package is a reader plugin for pynxtools and should be installed together with pynxtools:

uv pip install pynxtools[em]

for the latest released version.

This reader plugin for pynxtools is used to translate diverse file formats from the scientific community and technology partners within the field of electron microscopy into a standardized representation using the NeXus application definition NXem.

More information about this pynxtools plugin is available in the documentation. You will find information about getting started, how-to guides, the supported file formats, how to get involved, and much more there.

Markus Kühbach

Kühbach, M., Shabih, S., Brockhauser, S., Spiecker, E., Weber, H., Koch, C., Draxl, C. (2025). pynxtools-em: A pynxtools reader plugin for electron microscopy (EM) data. Zenodo. https://doi.org/10.5281/zenodo.13951684