Bulk RNA-seq

Bulk RNA-seq is a Data skill for Claude Code, published by K-Dense-AI in scientific-agent-skills.

33.5K stars3.3K forkson K-Dense-AI/scientific-agent-skillsAdded 2026/08/14Repository updated 2026/08/13

agent-skillsai-scientistbioinformaticschemoinformaticsclaudeclaude-skillsclaudecodeclinical-researchcomputational-biologydata-analysisdrug-discoverygenomicsmaterials-sciencemetabolomicsproteomicsscientific-computingscientific-visualization

Install in seconds

Install Bulk RNA-seq

Copy Bulk RNA-seq into your Claude Code skills folder. Run the command in your terminal, or review the source on GitHub before installing.

terminal

npx degit https://github.com/K-Dense-AI/scientific-agent-skills/tree/main/skills/bulk-rnaseq ~/.claude/skills/bulk-rnaseq

Requires Node.js. Downloads this skill only — not the rest of the repository — into your Claude Code skills folder.

Without Node.js

git clone https://github.com/K-Dense-AI/scientific-agent-skills.git

Clones the whole repository, then copy the skill’s own directory into your skills folder yourself.

In this catalog

Source file: skills/bulk-rnaseq/SKILL.md in K-Dense-AI/scientific-agent-skills
Installs to: ~/.claude/skills/bulk-rnaseq
Collection: One of 25 skills cataloged from this repository
Category: Data — 668 skills

What Bulk RNA-seq does

Bulk RNA-seq takes raw FASTQ reads through QC, trimming, alignment, quantification, and differential expression, then hands off to pathway enrichment and publication figures. Use it when you need a reproducible, end-to-end bulk RNA-seq differential-expression workflow.

Bulk RNA-seq is cataloged under Data on DirSkills. Bulk RNA-seq comes from a repository tagged agent-skills, ai-scientist, bioinformatics, chemoinformatics and claude.

Documentation

README

Excerpt

Bulk RNA-seq

Overview

This skill orchestrates a complete, defensible bulk RNA-seq differential-expression study, from raw sequencing reads to enriched pathways and figures. It is a router, not a reimplementation: most stages already have dedicated skills in this repo, and this skill connects them in the right order, fills the one real gap (raw reads → a gene-level counts matrix), and enforces the design and QC decisions that determine whether the final result is trustworthy.

This is the opening of the README. Read the full README on GitHub.

Frequently asked about Bulk RNA-seq

What else does K-Dense-AI publish alongside Bulk RNA-seq?
Bulk RNA-seq is one of 25 skills that DirSkills catalogs from K-Dense-AI/scientific-agent-skills, the repository it ships in. Its siblings there include Adaptyv Bio Foundry API, Aeon and Analytical Method Validation. Each one is a separate skill with its own page in this directory, installs the same way Bulk RNA-seq does, and is maintained by K-Dense-AI in that same repository. The rest of the collection is listed on the K-Dense-AI/scientific-agent-skills page.
How does Bulk RNA-seq compare to other Data skills?
Bulk RNA-seq ranks #42 by stars among the 668 Data skills in this catalog. The most-starred ones next to it are Benchmark Methodology, Jupyter Notebook and Solana. DirSkills ranks by the star count of the repository each skill ships in, so that order reflects how popular those repositories are rather than any review of Bulk RNA-seq against them. Open each page to compare what they document and how they install.