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cbioportal-database

77 / 100 · Review before installing

Check before installing. Some of what it can do is expected: a coding skill usually runs build and test commands.

By jaechang-hits/SciAgent-Skills (GitHub) · coding · 388 stars · scanned at commit 65d6ceb

Cancer genomics (TCGA et al.) via cBioPortal REST API. Retrieve somatic mutations, CNAs, expression, clinical data (survival/stage/treatment) across thousands of studies. Use for TMB, oncoprints, survival analysis. For population frequencies use gnomad-database; for drug-gene interactions use opentargets-database.

Works with any agent that supports SKILL.md skills.

What this skill can do

Safer alternatives

Low-risk skills in the same category (coding) that look related. Check that one does what you need.

• 90 Low riskcbioportal-skillopenai/plugins · 7,922 stars
• 100 Low riskkegg-databaseMicrock/ordinary-claude-skills · 413 stars
• 95 Low riskquickgo-databasemkurman/zorai · 327 stars

Install

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

if [ -e ~/.agents/skills/'cbioportal-database' ] || [ -L ~/.agents/skills/'cbioportal-database' ]; then echo 'A skill folder named cbioportal-database already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/jaechang-hits/SciAgent-Skills' "$d" && git -C "$d" checkout --quiet '65d6ceb875e20b751ffb3a6d8ee19516558789e1' -- 'skills/genomics-bioinformatics/databases/cbioportal-database' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/genomics-bioinformatics/databases/cbioportal-database' ~/.agents/skills/'cbioportal-database' && 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/'cbioportal-database' ~/.claude/skills/'cbioportal-database' (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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