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bio-workflows-methylation-pipeline

95 / 100 · Low risk

Fine to try. Some of what it can do is expected: a coding skill usually runs build and test commands.

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

Orchestrates the end-to-end bisulfite/EM-seq methylation pipeline from FASTQ to differentially methylated regions, chaining Trim Galore/fastp QC, Bismark alignment + deduplication, methylation calling, methylKit coverage-filtering/normalization, and selection-aware DMR detection (dmrseq/DSS). Use when gating the run on bisulfite conversion (lambda + pUC19 controls) BEFORE any beta value, committing the genome build + library directionality once, keeping mate-overlap deduplicated (--no_overlap),…

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