ClaudSkills / Engineering / engineering-misc

Bio Expression Matrix Normalization

Q: What is a Claude Code skill and how does the Bio Expression Matrix Normalization 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 Expression Matrix Normalization is one of 67,000+ skills indexed in the open ClaudSkills catalog, classified under the Engineering category. Learn more at https://claudskills.com/learn/what-is-skill-md/.

Category: Engineering · Sub-category: engineering-misc · Last updated: 2026-06-02

Normalizes and transforms RNA-seq count matrices for DE, visualization, clustering, and ML. Covers between-sample (TMM, TMMwsp, RLE/median-of-ratios, upper quartile), within-sample (TPM, FPKM/RPKM), variance-stabilizing (VST, rlog, log-CPM), GC-content correction (cqn, EDASeq), and single-cell (scran deconvolution, scanpy normalize_total). Encodes the composition-bias rationale, the "most genes not DE" assumption and its catastrophic failure modes (MYC amplification, apoptosis, viral host shutoff, prokaryotic stress), the "lengthScaledTPM is not TPM" naming trap, the "TPM is not for DE" rule, the blind=TRUE vs FALSE decision, ERCC spike-in normalization (SBN), and the single-cell zero-inflation breakdown of TMM/RLE. Use when choosing or applying normalization, debugging shifted-MA-plot diagnostics, handling zero-heavy single-cell data, or correcting GC bias.

Security AStatic scan found no risk patternsHow grading works ›

About this skill (catalog notes)

Bio Expression Matrix Normalization includes 17 code blocks for direct copy-paste. At roughly 3,297 words the SKILL.md is on the longer end of the catalog distribution.

Source: bg-szy.github.io/TOP-SKILLS
Original author: bg-szy
Indexed lastmod: 2026-06-02
Catalog position: Engineering · engineering-misc
Indexed related skills: 10

How Bio Expression Matrix Normalization fits the catalog

Bio Expression Matrix Normalization sits in the Engineering category under the engineering-misc sub-topic in the ClaudSkills catalog. There are 10 related skills indexed alongside it; comparing a few before installing usually reveals which fits your workflow best.

These notes are auto-generated from features detected in the SKILL.md file and from this catalog's structure — they aren't part of the source repository.

What this skill does

Bio Expression Matrix Normalization is a community-contributed Claude Code skill in the engineering-misc sub-category. It ships as a SKILL.md file that Claude Code auto-discovers under ~/.claude/skills/bio-expression-matrix-normalization/ and loads when your prompt matches the skill's trigger.

When to invoke it: Use when choosing or applying normalization, debugging shifted-MA-plot diagnostics, handling zero-heavy single-cell data, or correcting GC bias.

Who uses this skill

The Bio Expression Matrix Normalization Claude Code skill is built for software engineers, backend developers, full-stack teams, and technical leads building and maintaining production systems. 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-expression-matrix-normalization
curl -L https://claudskills.com/skills/bio-expression-matrix-normalization/SKILL.md \
  -o ~/.claude/skills/bio-expression-matrix-normalization/SKILL.md

Or just download SKILL.md directly and drop it into ~/.claude/skills/bio-expression-matrix-normalization/. Claude Code auto-discovers it on next session.

Skills live at ~/.claude/skills/bio-expression-matrix-normalization/SKILL.md on macOS/Linux, or %USERPROFILE%\.claude\skills\bio-expression-matrix-normalization\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 Expression Matrix Normalization Claude Code skill?

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

What does the Bio Expression Matrix Normalization 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 Expression Matrix Normalization skill?

Use Bio Expression Matrix Normalization when your Claude Code task falls under the Engineering category — specifically in the engineering 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 Expression Matrix Normalization" or describe the task and let Claude pick). Browse related skills at /category/engineering/.

What is a Claude Code skill and how does the Bio Expression Matrix Normalization 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 Expression Matrix Normalization is one of 67,000+ skills indexed in the open ClaudSkills catalog, classified under the Engineering 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-expression-matrix-normalization/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 Expression Matrix Normalization [Claude Code skill]. ClaudSkills. https://claudskills.com/skills/bio-expression-matrix-normalization/

BibTeX

@misc{bio-expression-matrix-normalization-2026,
  author    = {bg-szy},
  title     = {Bio Expression Matrix Normalization [Claude Code skill]},
  year      = {2026},
  publisher = {ClaudSkills},
  url       = {https://claudskills.com/skills/bio-expression-matrix-normalization/}
}

Embed this skill

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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-expression-matrix-normalization/#security)

More Engineering skills

Browse all Engineering skills in the ClaudSkills registry, or explore these other picks from the same category:

Browse all Engineering skills → Top 100 skills

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