A napari plugin for visualising and interacting with electron cryotomograms.

Related tags

Data Visualization napari-tomoslice
Overview

napari-tomoslice

License PyPI Python Version tests codecov

A napari plugin for visualising and interacting with electron cryotomograms.

Installation

You can install napari-tomoslice via pip:

pip install napari-tomoslice

Usage

This plugin provides a user interface for opening electron cryotomograms in napari as both volumes and slices through volumes.

demo

The plugin can be opened from the plugins menu in napari, or with napari-tomoslice at the command line.

plugins-menu

Usage: napari-tomoslice [TOMOGRAM_FILE]

  An interactive tomogram slice viewer in napari.

  Controls: 
  x/y/z - align normal vector along x/y/z axis 
  click and drag - shift plane along its normal vector

Arguments:
  [TOMOGRAM_FILE]

Options:
  --help                          Show this message and exit.

Contributing

Contributions are very welcome.

License

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

Issues

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

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Comments
  • unpin napari?

    unpin napari?

    Howdie!

    I'm obsessively trying to make npe2 fetch (https://github.com/napari/npe2/pull/185) work for as many plugins as I can. This one and napari-subboxer are both failing because they pin napari to 0.4.12 ... which unfortunately doesn't work with npe2, since it imports some private stuff that got removed. is it conceivable to unpin here and at subboxer? or did we break too much for you?

    opened by tlambert03 3
  • Could we add sdists on pypi release?

    Could we add sdists on pypi release?

    Hi @alisterburt

    Currently pypi.org/project/napari-tomoslice/#files only uploaded wheels for the latest version. We also do not have github releases, so unlike eulerangles we cannot create a conda recipe at the moment.

    Do you thing you could do a minor release to include the sdist files and not just the wheels?

    Thanks!

    opened by goanpeca 2
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