Directory / Scientific Agent Skills (K-Dense) / bulk-rnaseq

bulk-rnaseq

Prepares bulk RNA-seq FASTQ, Salmon, STAR or featureCounts output for gene-level differential expression. Covers nf-core/rnaseq and standalone quantification, biological replication, strandedness, reference provenance, validated count assembly and a PyDESeq2 handoff. Use for FASTQ-to-counts analysis, nf-core/rnaseq configuration, STAR/Salmon quantification, or building a counts matrix for DESeq2. For single-cell data use scanpy; for statistical fitting alone use pydeseq2.
Description from the SKILL.md front matter.

Install

GitHub CLI v2.90+ (Copilot by default)

gh skill install K-Dense-AI/scientific-agent-skills bulk-rnaseq

For Claude Code

gh skill install K-Dense-AI/scientific-agent-skills bulk-rnaseq --agent claude-code

For Codex

gh skill install K-Dense-AI/scientific-agent-skills bulk-rnaseq --agent codex

Commands follow each host's documentation (Any Agent Skills host (Claude Code, Codex, Cursor, Gemini CLI, Copilot…) docs). gh skill needs GitHub CLI 2.90 or later and is in public preview.

Listed from K-Dense Inc.'s catalog, not reviewed by us. Read the source before installing.

Catalog: Scientific Agent Skills (K-Dense)
Author: K-Dense Inc.
Source code: K-Dense-AI/scientific-agent-skills
License: MIT
Repository stars: 52,795 for K-Dense-AI/scientific-agent-skills (the whole catalog repo)
Version: 2.0
Added to catalog: Not tracked for this source
Last change: 2026-10-19 (last push to the repo)

What it contains

Skills: 1

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