aelefebv/nellie
Nellie: Automated organelle segmentation, tracking, and hierarchical feature extraction in 2D/3D live-cell microscopy
Nellie helps biologists and researchers analyze changes and movements of organelles within cells from 2D or 3D live-cell microscopy images. You input your microscopy data, and Nellie automatically identifies, tracks, and measures the morphology and movement of organelles. This tool is designed for cell biologists, neuroscientists, and developmental biologists who study cellular processes without needing to write code.
Available on PyPI.
Use this if you need an automated, user-friendly way to quantify complex organelle morphology and dynamic interactions from microscopy images.
Not ideal if you are looking to analyze static cellular structures or if you need to perform manual, highly custom segmentation for niche structures not recognized by the automated pipeline.
Stars
90
Forks
12
Language
Python
License
—
Category
Last pushed
Jan 14, 2026
Commits (30d)
0
Dependencies
9
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