alterlab-gget

80 / 100 · Low risk

Fine to try.

By AlterLab-IEU/AlterLab-Academic-Skills (GitHub) · research · 87 stars · scanned at commit 3ab6d03

Run fast one-liner queries to 20+ bioinformatics databases from the gget CLI or Python — gene info (Ensembl), BLAST, AlphaFold structures, Enrichr enrichment, and more. Use for quick interactive lookups of genes, sequences, structures, or pathways — for batch processing or advanced BLAST use biopython, for multi-database Python workflows use bioservices. Part of the AlterLab Academic Skills suite.

Works with any agent that supports SKILL.md skills.

Partially scanned — some files couldn't be read; we'll retry on the next scan

What this skill can do

Downloads and installs other software

The author does not mention this.

Found in 7 places.

skills/bioinformatics/alterlab-gget/SKILL.md, line 6compatibility: "No API key required: the core modules (info, search, seq, ref, blast, blat, pdb, alphafold, enrichr, archs4, opentargets, bgee, ...) query publi
skills/bioinformatics/alterlab-gget/SKILL.md, line 30uv pip install --upgrade gget
skills/bioinformatics/alterlab-gget/SKILL.md, line 94`alphafold` (~4GB params, needs `uv pip install openmm` first), `cellxgene`,

Show 4 more

skills/bioinformatics/alterlab-gget/SKILL.md, line 125- Database structures change; keep gget updated: `uv pip install --upgrade gget`.
skills/bioinformatics/alterlab-gget/evals/evals.json, line 27"expected_output": "Triggers the gget skill. Should use gget alphafold, and note the one-time setup: `uv pip install openmm` then `gget setup alphafold` (downlo
skills/bioinformatics/alterlab-gget/references/database_info.md, line 10uv pip install --upgrade gget
skills/bioinformatics/alterlab-gget/references/module_examples.md, line 195uv pip install openmm

Runs commands on your computer

The author does not mention this.

Found in 2 places.

skills/bioinformatics/alterlab-gget/SKILL.md, line 30uv pip install --upgrade gget
skills/bioinformatics/alterlab-gget/SKILL.md, line 42gget <module> [arguments] [options]

Install

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

if [ -e ~/.agents/skills/'alterlab-gget' ] || [ -L ~/.agents/skills/'alterlab-gget' ]; then echo 'A skill folder named alterlab-gget already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/AlterLab-IEU/AlterLab-Academic-Skills' "$d" && git -C "$d" checkout --quiet '3ab6d034385ec4fedc3f6f4099292d4e91f60300' -- 'skills/bioinformatics/alterlab-gget' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/bioinformatics/alterlab-gget' ~/.agents/skills/'alterlab-gget' && 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/'alterlab-gget' ~/.claude/skills/'alterlab-gget' (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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Score history

Date	Version	Score
2026-11-07	`3ab6d03`	80