Filament Toolbox

A number of tools useful for segmenting and analyzing filaments.

  • Volker Baecker

Tools useful for segmenting and analyzing filaments.

License MIT PyPI Python Version tests codecov napari hub npe2 Copier

A number of tools useful for segmenting and analyzing filaments. Please check the wiki for more information.


This napari plugin was generated with copier using the napari-plugin-template (None).

Installation

You can install filament-toolbox via pip:

pip install filament-toolbox

If napari is not already installed, you can install filament-toolbox with napari and Qt via:

pip install "filament-toolbox[all]"

To install latest development version :

pip install git+https://github.com/MontpellierRessourcesImagerie/filament-toolbox.git

Contributing

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.

License

Distributed under the terms of the MIT license, "filament-toolbox" is free and open source software

Issues

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

Version:

  • 1.0.4

Last updated:

  • 2026-05-23

First released:

  • 2026-05-17

License:

  • MIT

Supported data:

  • Information not submitted

Open extension:

Save extension:

Python versions supported:

Operating system:

  • Information not submitted

Requirements:

  • numpy
  • magicgui
  • qtpy
  • scikit-image
  • scikit-learn
  • skan
  • opencv-python
  • medpy
  • pyperclip
  • set-calibration
  • brightest-path-lib
  • napari-plot-profile
  • localthickness
  • auto-options-python
  • crackle-codec
  • kimimaro
  • napari[all]; extra == "all"
Website by the napari team, original design by CZI. Go to napari main website.