napari-imagej
0.1.0
Contents:
Installation
Initialization
Configuration
Troubleshooting
Use cases
Tracking HeLa cell nuclei with TrackMate
Viewing TrackMate Data in the napari Viewer
Puncta Segmentation with SciJava Scripts (headless)
Image Processing with ImageJ Ops (headless)
Developer’s Guide
napari-imagej Architecture
Benchmarking
napari-imagej
Use cases
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Use cases
Below we document use cases for the napari-imagej plugin.
Tracking HeLa cell nuclei with TrackMate
TrackMate Setup
Preparing the Data
Running TrackMate
Processing tracks with napari-stracking
Viewing TrackMate Data in the napari Viewer
TrackMate XML
Obtaining sample data
Opening the data
Puncta Segmentation with SciJava Scripts (headless)
Configuration
The Code
Installing the script
Running the script
Image Processing with ImageJ Ops (headless)
Ops, explained
A simple gaussian Blur
Read the Docs
v: 0.1.0
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