napari molecule reader


A napari plugin that read molecular structure files.

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A napari plugin that read molecular structure files. It reads PDB and MMCIF files using atomium, expanding molecular assemblies to a full visualization. Data is loaded into napari as Points for ball representation and Vectors for stick representation. If multiple models or assemblies are detected, they will be loaded as separate objects.

TODO list:

  • [] handle alternate locations (i.e: different conformations in the same pdb model)

This napari plugin was generated with Cookiecutter using @napari's cookiecutter-napari-plugin template.


You can install napari-molecule-reader via pip:

pip install napari-molecule-reader

To install latest development version :

pip install git+


Contributions are very welcome. Tests can be run with tox, please ensure the coverage at least stays the same before you submit a pull request.


Distributed under the terms of the BSD-3 license, "napari-molecule-reader" is free and open source software


If you encounter any problems, please file an issue along with a detailed description.


  • 0.1.2

Last updated:

  • 31 January 2022

First released:

  • 21 December 2021


Supported data:

  • Information not submitted

Plugin type:

Open extension:

GitHub activity:

  • Stars: 4
  • Forks: 2
  • Issues + PRs: 1

Python versions supported:

Operating system:


  • numpy
  • pandas
  • scipy
  • atomium

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