https://github.com/jumitti/skeletonanalyzer

Python script to facilitate the processing of data obtained with the AnalyzeSkeleton tool from Fiji/ImageJ
https://github.com/jumitti/skeletonanalyzer

dataanalysis fiji imagej

Last synced: 9 months ago
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Python script to facilitate the processing of data obtained with the AnalyzeSkeleton tool from Fiji/ImageJ

• Host: GitHub
• URL: https://github.com/jumitti/skeletonanalyzer
• Owner: Jumitti
• Created: 2024-07-20T08:37:11.000Z (over 1 year ago)
• Default Branch: main
• Last Pushed: 2024-07-20T09:14:40.000Z (over 1 year ago)
• Last Synced: 2025-03-13T00:30:36.707Z (about 1 year ago)
• Topics: dataanalysis, fiji, imagej
• Language: Python
• Homepage: https://skeletonanalyzer.streamlit.app/
• Size: 4.88 KB
• Stars: 0
• Watchers: 1
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md

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README

          
# Skeleton Analyzer 🦴

Python script to facilitate the processing of data obtained with the AnalyzeSkeleton tool from Fiji/ImageJ

### Analyze

- Branches, Junctions and End-point Voxels are sums

- Average Branch Length is a mean

### How to use

#### Web way

- [Skeleton Analyzer](https://skeletonanalyzer.streamlit.app/)

- Or with [LabMaster](https://labmaster.streamlit.app/) (bundle of application)

If the application is dormant, you can restart it.

#### LOCAL easy way (WINDOWS only)

- Download [last release ``skeletonanalyzer.exe``](https://github.com/Jumitti/skeletonanalyzer/releases)

- Install [Python 3](https://www.python.org/downloads/)

- Run ``skeletonanalyzer.exe``

#### LOCAL other way

- Download [GitHub repo](https://github.com/Jumitti/skeletonanalyzer/archive/refs/heads/main.zip)

- Install [Python 3](https://www.python.org/downloads/)

- Install packages from requirements.txt with ``pip install -r requirements.txt`` in CMD

- Run in CMD ``streamlit run main.py``

- Enjoy 🎉

### [Documentation of AnalyzeSkeleton from Fiji](https://imagej.net/plugins/analyze-skeleton)

### Issues

Please contact [minnitijulien06@gmail.com](mailto:minnitijulien06@gmail.com) or [Issues](https://github.com/Jumitti/skeletonanalyzer/issues)