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Plot intensity along a line and create topographical views in napari

Project description

napari-plot-profile (npp)

License PyPI Python Version tests codecov Development Status napari hub

Plot a Line Profile

Plot intensities along a line in napari.


  • Open some images in napari.

  • Add a shapes layer.


  • Activate the line drawing tool or the path tool and draw a line.


  • After drawing a line, click on the menu Plugins > Measurements (Plot Profile)
  • If you modify the line, you may want to click the "Refresh" button to redraw the profile.


To see how these steps can be done programmatically from python, check out the demo notebook

Create a Topographical View

Create a 3D view of a 2D image by warping pixel intensities to heights. It can be displayed as a 3D image layer, a points cloud layer or a surface layer.

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


You can install napari-plot-profile via pip:

pip install napari-plot-profile


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-plot-profile" is free and open source software


If you encounter any problems, please create a thread on along with a detailed description and tag @haesleinhuepf.

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