A napari plugin for measuring properties of labeled objects based on scikit-image
The user can select categories of features for feature extraction in the user interface. These categories contain measurements from the scikit-image regionprops list of measurements library:
- size:
- area
- bbox_area
- convex_area
- equivalent_diameter
- intensity:
- max_intensity
- mean_intensity
- min_intensity
- standard_deviation_intensity (
extra_properties
implementation using numpy)
- perimeter:
- perimeter
- perimeter_crofton
- shape
- major_axis_length
- minor_axis_length
- orientation
- solidity
- eccentricity
- extent
- feret_diameter_max
- local_centroid
- position:
- centroid
- bbox
- weighted_centroid
- moments:
- moments
- moments_central
- moments_hu
- moments_normalized
This napari plugin was generated with Cookiecutter using with @napari's cookiecutter-napari-plugin template.
You can install napari-skimage-regionprops
via pip:
pip install napari-skimage-regionprops
Or if you plan to develop it:
git clone https://github.com/haesleinhuepf/napari-skimage-regionprops
cd napari-skimage-regionprops
pip install -e .
If there is an error message suggesting that git is not installed, run conda 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-skimage-regionprops" is free and open source software
If you encounter any problems, please create a thread on image.sc along with a detailed description and tag @haesleinhuepf.