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bio-variant-calling-structural-variant-calling

95 / 100 · Low risk

Fine to try.

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

Call structural variants (>=50 bp deletions, insertions, inversions, duplications, translocations) from short- or long-read data by reconstructing four orthogonal signals (discordant pairs, split reads via the SA tag, read depth, local assembly). Covers Manta, DELLY, LUMPY/smoove, GRIDSS2, SvABA for short reads and Sniffles2, cuteSV, pbsv, dipcall/PAV for long reads, each mapped to the signals it fuses and the blind spots that follow. Use when choosing an SV caller from its signal set and failu…

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