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bio-spatial-transcriptomics-spatial-proteomics

85 / 100 · Low risk

Fine to try.

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

Analyzes multiplexed antibody-imaging data (CODEX/PhenoCycler, MIBI-TOF, IMC, CyCIF, Opal/Vectra mIF) as continuous protein intensity rather than transcript counts, using scimap and squidpy. Use when choosing an intensity transform/normalization (arcsinh cofactor vs z-score vs percentile -- NOT log1p-of-counts) and correcting channel spillover and antibody-batch effects; deciding whether to phenotype by gating or by clustering on intensities; recognizing that a bounded antibody panel makes mark…

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-spatial-transcriptomics-spatial-proteomics' ] || [ -L ~/.agents/skills/'bio-spatial-transcriptomics-spatial-proteomics' ]; then echo 'A skill folder named bio-spatial-transcriptomics-spatial-proteomics 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 "$d" checkout --quiet '908229c955510a1841b216e8bf58f6b22818d4dc' -- 'skills/bio-spatial-transcriptomics-spatial-proteomics' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/bio-spatial-transcriptomics-spatial-proteomics' ~/.agents/skills/'bio-spatial-transcriptomics-spatial-proteomics' && 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-spatial-transcriptomics-spatial-proteomics' ~/.claude/skills/'bio-spatial-transcriptomics-spatial-proteomics' (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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