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bio-imaging-mass-cytometry-cell-segmentation

80 / 100 · Low risk

Fine to try.

By lilinji/GeneTind-Life-Skills (GitHub) · media · 17 stars · scanned at commit 908229c

Segment single cells from multiplexed IMC/MIBI tissue images using Mesmer/DeepCell, Cellpose, or ilastik+CellProfiler, covering whole-cell vs nuclear segmentation, the summed-membrane-channel decision, nuclear-expansion bias, lateral spillover, resolution-floor parameters, and downstream-proxy evaluation. Use when delineating cells after preprocessing, choosing a segmentation model, building a cell mask for quantification, diagnosing impossible double-positive populations, or troubleshooting ov…

Works with any agent that supports SKILL.md skills.

What this skill can do

Install

Paste this into your terminal. It downloads exactly the version we scanned, not whatever is newest.

if [ -e ~/.agents/skills/'bio-imaging-mass-cytometry-cell-segmentation' ] || [ -L ~/.agents/skills/'bio-imaging-mass-cytometry-cell-segmentation' ]; then echo 'A skill folder named bio-imaging-mass-cytometry-cell-segmentation already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/lilinji/GeneTind-Life-Skills' "$d" && git -C "$d" checkout --quiet '908229c955510a1841b216e8bf58f6b22818d4dc' -- 'skills/bio-imaging-mass-cytometry-cell-segmentation' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/bio-imaging-mass-cytometry-cell-segmentation' ~/.agents/skills/'bio-imaging-mass-cytometry-cell-segmentation' && rm -rf "$d"; fi

Codex reads ~/.agents/skills directly. For Claude Code, Cursor, Copilot, Gemini CLI, Antigravity or OpenCode, also link it. For Claude Code: ln -s ~/.agents/skills/'bio-imaging-mass-cytometry-cell-segmentation' ~/.claude/skills/'bio-imaging-mass-cytometry-cell-segmentation' (other agents: ~/.cursor/skills, ~/.copilot/skills, ~/.gemini/skills, ~/.gemini/config/skills, ~/.config/opencode/skills). Or install through the finder skill, which does both.

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