← All skills

encode-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

ENCODE Portal REST API for regulatory genomics: TF ChIP-seq, ATAC-seq/DNase-seq peaks, histone marks, and RNA-seq across 1000+ cell types. Search experiments by assay/biosample/target; download BED/bigWig; retrieve SCREEN cCREs by region or gene. Use to annotate variants with regulatory tracks, find open chromatin in a cell type, or fetch peak files for ChIP/ATAC analysis. For regulatory variant scoring use regulomedb-database; for GWAS associations use gwas-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.

• 95 Low riskencode-ccres-databasemkurman/zorai · 327 stars
• 100 Low riskbio-database-evidenceforyourhealth111-pixel/Vibe-Skills · 3,810 stars
• 92 Low riskgwas-databasedavila7/claude-code-templates · 33,256 stars

Install

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

if [ -e ~/.agents/skills/'encode-database' ] || [ -L ~/.agents/skills/'encode-database' ]; then echo 'A skill folder named encode-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 "$d" checkout --quiet '65d6ceb875e20b751ffb3a6d8ee19516558789e1' -- 'skills/genomics-bioinformatics/databases/encode-database' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/genomics-bioinformatics/databases/encode-database' ~/.agents/skills/'encode-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/'encode-database' ~/.claude/skills/'encode-database' (other agents: ~/.cursor/skills, ~/.copilot/skills, ~/.gemini/skills, ~/.gemini/config/skills, ~/.config/opencode/skills). Or install through the finder skill, which does both.

Badge for your README

The badge for jaechang-hits/SciAgent-Skills shows the score of its lowest-scoring skill.

[![SkillTrust](https://zalavijaysinh.github.io/skilltrust/badges/jaechang-hits/SciAgent-Skills.svg)](https://zalavijaysinh.github.io/skilltrust/repos/jaechang-hits/SciAgent-Skills/)

Score history