napari-correct-drift 0.4.0

Drift correction 2D/3D for Napari similar to Fijis Correct 3D drift macro

napari-correct-drift

Napari-correct-drift brings the functionality of Fiji’s popular Correct-3D-drift macro to Napari for flexible and efficient correction of stage and sample drift common in time-lapse microscopy.

Napari-correct-drift supports drift correction for 2D/3D multi-channel data.

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Example

https://user-images.githubusercontent.com/895863/235100349-83379350-06a5-4fe7-9323-f3e5771cca2e.mp4

Test data

Napari-correct-drift contains synthetic sample data. To test it on real data download an example Arabidopsis growing root tip file.

Installation

You can install napari-correct-drift via [pip]:

pip install napari-correct-drift

To install latest development version :

pip install git+https://github.com/sommerc/napari-correct-drift.git

Roadmap

• Basic CorrectDrift interface
• Synthetic test data
• Unit tests
• 2D/3D multi-channel support
• ROI support (rectangles)
• Saving and loading of drift tables
• Outlier handling
• Sphinx documentation
• How-tos
• Tutorials and Guides

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-correct-drift" is free and open source software

Acknowledgment

This project has been made possible in part by grant number NP2-0000000051 from the napari Plugin Foundations Grants (Cycle 2).