Use this skill to extract deterministic morphology and intensity features from a toy image with `scikit-image` `regionprops_table`.
Scanned 9/8/2026
Install to Claude Code
npx -y skills add ma-compbio-lab/SkillFoundry --skill skimage-regionprops-feature-extraction --agent claude-codeInstalls into .claude/skills of the current project.
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# scikit-image Regionprops Feature Extraction
Use this skill to extract deterministic morphology and intensity features from a toy image with `scikit-image` `regionprops_table`.
## What it does
- creates a reproducible grayscale toy image with three bright ellipse-like objects
- thresholds and labels connected components locally
- summarizes per-object morphology and intensity features into compact JSON
- keeps the output stable enough for smoke tests and starter workflows
## When to use it
- You need a local `feature-extraction` starter in the scikit-image ecosystem.
- You want a minimal handoff point before building larger imaging or phenotype-analysis pipelines.
## Example
```bash
./slurm/envs/scientific-python/bin/python \
skills/imaging-and-phenotype-analysis/skimage-regionprops-feature-extraction/scripts/run_skimage_regionprops_features.py \
--threshold 0.35 \
--out scratch/skimage-regionprops/summary.json
```
## Verification
- Skill-local tests: `python3 -m unittest discover -s skills/imaging-and-phenotype-analysis/skimage-regionprops-feature-extraction/tests -p 'test_*.py'`
- Asset regeneration: `./slurm/envs/scientific-python/bin/python skills/imaging-and-phenotype-analysis/skimage-regionprops-feature-extraction/scripts/run_skimage_regionprops_features.py --out skills/imaging-and-phenotype-analysis/skimage-regionprops-feature-extraction/assets/toy_regionprops_summary.json`
## Notes
- This is a starter for the taxonomy leaf `feature-extraction`.
- The image is synthetic and deterministic; it is intended for scaffolding and verification rather than biological interpretation.
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