napari-blob-detection

Detects blobs in images

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

This plugin uses scikit-image's blob detection algorithms to detect bright blobs on dark backgrounds.

Parameters

• method: Laplacian of Gaussian (most accurate) or Difference of Gaussian (faster approximation)
• image: Image layer for blob detection. Can be a 2D, 3D, or higher dimensionality image.
• dimensionality: users can specify if the image is 2D(+t) or 3D(+t).
• min sigma: the smallest blob size to detect
• max sigma: the largest blob size to detect
• threshold: the lower the threshold, the more low intensity blobs are detected.

Output

Blobs are represented by the Points layer. The size of each blob is proportional to Points.feature['sigma'], which signifies the scale at which the feature point was found.

Installation

You can install napari-blob-detection via pip:

pip install napari-blob-detection

To install latest development version :

pip install git+https://github.com/andy-sweet/napari-blob-detection.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 BSD-3 license, "napari-blob-detection" is free and open source software

Issues

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