bio-copy-number-gatk-cnv

Q: What is a Claude Code skill and how does the bio-copy-number-gatk-cnv skill fit in?

A Claude Code skill is a SKILL.md file that lives under ~/.claude/skills/<name>/ and tells the Claude Code CLI agent how to perform a specific task (instructions, prompts, allowed tools). Skills are auto-discovered at session start. bio-copy-number-gatk-cnv is one of 67,000+ skills indexed in the open ClaudSkills catalog, classified under the Content category. Learn more at https://claudskills.com/learn/what-is-skill-md/.

Category: Content · Sub-category: content-misc · Last updated: 2026-06-02

lang:python type:integration

Call copy number variants with the GATK best-practices workflows — the somatic CNV pipeline (CollectReadCounts, DenoiseReadCounts with tangent normalization, ModelSegments, CallCopyRatioSegments) and the germline GATK-gCNV pipeline (DetermineGermlineContigPloidy, GermlineCNVCaller cohort/case mode, PostprocessGermlineCNVCalls). Covers panel-of-normals construction, AnnotateIntervals/FilterIntervals, allelic-count integration, and QS-based filtering. Use when integrating CNV calling into a GATK variant pipeline, calling rare germline CNVs from an exome cohort, deciding between the somatic and germline GATK workflows, or diagnosing why tangent normalization removed a real event or why gCNV output has low precision.

Security AStatic scan found no risk patternsHow grading works ›

What this skill does

bio-copy-number-gatk-cnv is a community-contributed Claude Code skill in the content-misc sub-category. It ships as a SKILL.md file that Claude Code auto-discovers under ~/.claude/skills/bio-copy-number-gatk-cnv--skills-gatk-cnv/ and loads when your prompt matches the skill's trigger.

When to invoke it: Use when integrating CNV calling into a GATK variant pipeline, calling rare germline CNVs from an exome cohort, deciding between the somatic and germline GATK workflows, or diagnosing why tangent normalization removed a real event or why gCNV output has low precision.

Who uses this skill

The bio-copy-number-gatk-cnv Claude Code skill is built for content creators, marketers, copywriters, SEO professionals, and editorial teams. It's part of ClaudSkills (also referred to as Claude Skills or Claude Code Skills) — the open community-curated registry of 115,000+ SKILL.md files for Anthropic's Claude Code agent and the wider Claude ecosystem (Claude API, Claude Agent SDK).

How to install

Free

Manual install (2 steps)

mkdir -p ~/.claude/skills/bio-copy-number-gatk-cnv--skills-gatk-cnv
curl -L https://claudskills.com/skills/bio-copy-number-gatk-cnv--skills-gatk-cnv/SKILL.md \
  -o ~/.claude/skills/bio-copy-number-gatk-cnv--skills-gatk-cnv/SKILL.md

Or just download SKILL.md directly and drop it into ~/.claude/skills/bio-copy-number-gatk-cnv--skills-gatk-cnv/. Claude Code auto-discovers it on next session.

Skills live at ~/.claude/skills/bio-copy-number-gatk-cnv--skills-gatk-cnv/SKILL.md on macOS/Linux, or %USERPROFILE%\.claude\skills\bio-copy-number-gatk-cnv--skills-gatk-cnv\SKILL.md on Windows. See the full install guide for step-by-step instructions.

📱 Install from your phone or desktop Telegram

Open @claudskills_bot on Telegram, tap Open Desktop App, and the desktop app installs this skill for you. Or share the bot link with a colleague — they get the same one-tap install. Learn more →

Pro

One-click install via the desktop app

The ClaudSkills desktop app installs any skill directly into ~/.claude/skills/ with one click — no terminal required. Pro starts at $9/mo or $149 lifetime.

Pro

For the full experience including quality scoring and one-click install features for each skill — upgrade to Pro.

See pricing → Download desktop app

Frequently asked questions

How do I install the bio-copy-number-gatk-cnv Claude Code skill?

Install via the ClaudSkills desktop app (one click) or copy SKILL.md from the source repository to ~/.claude/skills/bio-copy-number-gatk-cnv--skills-gatk-cnv/SKILL.md and restart Claude Code. Both flows are detailed at claudskills.com/install/.

What does the bio-copy-number-gatk-cnv skill do?

Is this skill free to install?

Yes. ClaudSkills is an open registry — every skill keeps its source repository's license, and manual install via copy is free. ClaudSkills Pro ($9/mo, $79/yr, or $149 one-time) adds one-click install via the desktop app and a multi-signal Quality Score.

When should I use the bio-copy-number-gatk-cnv skill?

Use bio-copy-number-gatk-cnv when your Claude Code task falls under the Content category — specifically in the content misc area. Claude Code auto-discovers installed skills and invokes the right one based on the task description, so you can also ask Claude directly (e.g. "use bio-copy-number-gatk-cnv" or describe the task and let Claude pick). Browse related skills at /category/content/.

What is a Claude Code skill and how does the bio-copy-number-gatk-cnv skill fit in?

A Claude Code skill is a SKILL.md file that lives under ~/.claude/skills/<name>/ and tells the Claude Code CLI agent how to perform a specific task (instructions, prompts, allowed tools). Skills are auto-discovered at session start. bio-copy-number-gatk-cnv is one of 67,000+ skills indexed in the open ClaudSkills catalog, classified under the Content category. Learn more at /learn/what-is-a-claude-skill/.

Attribution & license

Source: https://github.com/bg-szy/TOP-SKILLS/blob/HEAD/skills/awesome-skills/bio-copy-number-gatk-cnv__skills-gatk-cnv/SKILL.md
Author: bg-szy
Website: https://bg-szy.github.io/TOP-SKILLS/

Cite this skill

If you reference this skill in a blog post, paper, or documentation, you can cite it as:

APA

bg-szy. (2026). bio-copy-number-gatk-cnv [Claude Code skill]. ClaudSkills. https://claudskills.com/skills/bio-copy-number-gatk-cnv--skills-gatk-cnv/

BibTeX

@misc{bio-copy-number-gatk-cnv--skills-gatk-cnv-2026,
  author    = {bg-szy},
  title     = {bio-copy-number-gatk-cnv [Claude Code skill]},
  year      = {2026},
  publisher = {ClaudSkills},
  url       = {https://claudskills.com/skills/bio-copy-number-gatk-cnv--skills-gatk-cnv/}
}

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Badge

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Security scan

Grade A · scanned 2026-06-13 — free static scan against the OWASP Agentic Skills Top 10.

No risk patterns were found in any of the ten OWASP-aligned categories. How grading works ›

✓ Prompt injection
✓ Data exfiltration
✓ Supply chain
✓ Reverse shell
✓ Credentials
✓ Execution
✓ Filesystem
✓ Persistence
✓ Obfuscation
✓ Network

Show this grade on your repo (click to copy):

[![Security: A](https://img.shields.io/badge/Security-A-2e7d32)](https://claudskills.com/skills/bio-copy-number-gatk-cnv--skills-gatk-cnv/#security)