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eddielueng
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bioinformatics

Fetch domain-specific bioinformatics reference guidance and runnable pipelines from indexed skill libraries.

1|Updated Apr 14, 2026
Search Tags:#bioinformatics#genomics#scientific computing#omics#variant calling#single-cell rna-seq#pipeline references
One-click install
npx skills add https://github.com/eddielueng/hermes-agent-zh --skill bioinformatics-eddielueng
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: bioinformatics
Source: https://github.com/eddielueng/hermes-agent-zh/tree/main/optional-skills/research/bioinformatics
Command: npx skills add https://github.com/eddielueng/hermes-agent-zh --skill bioinformatics-eddielueng

SYSTEM DOCUMENTATION & REQUIREMENTS

What problem does it solve?

Bioinformatics workflows often require many domain-specific steps, parameters, and pipelines, and finding the right reference material quickly can be difficult—especially when you need exact guidance for tasks like variant calling or single-cell analysis.

Core Features & Use Cases

  • Gateway to indexed bioinformatics skills: Provides access to hundreds of bioinformatics topics by indexing large open skill libraries rather than bundling everything locally.
  • Domain coverage across major omics areas: Helps with genomics, transcriptomics (bulk and single-cell), variant calling and annotation, epigenomics, pharmacogenomics, metagenomics, structural biology, proteomics, and more.
  • Reference-first retrieval: Pulls domain-specific reference material on demand from bioSkills (topic SKILL.md + code patterns) and ClawBio (runnable pipeline/readme-based skills), so you can follow validated parameters and established analysis structures.

Quick Start

Use the bioinformatics skill to get domain-specific guidance by asking for the exact analysis you need, for example: "Prepare a reference-driven plan for RNA-seq differential expression from raw counts, including the recommended QC checks and parameter choices."

Frequently Asked Questions about bioinformatics

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I find validated parameters for a single-cell RNA-seq analysis pipeline?▼

To find validated parameters for single-cell RNA-seq, you can retrieve domain-specific reference materials by indexing open skill libraries. This fetches established analysis structures and correct tool flags on demand for transcriptomics tasks.

What is the best way to get reference guidance for variant calling workflows?▼

The best way to get variant calling reference guidance is fetching indexed SKILL.md and README materials from cloned bioSkills and ClawBio repositories. These serve as expert references for correct tool flags and validated parameters.

Do I need to clone repositories before fetching bioinformatics guidance?▼

Yes, you need to locally clone the bioSkills and ClawBio repositories before fetching guidance. The system retrieves reference materials and runnable pipelines by indexing these locally cloned open skill libraries on demand.

Can I get computational biology references for metagenomics and pharmacogenomics?▼

Yes, you can get computational biology references for metagenomics and pharmacogenomics. The system indexes large open skill libraries to provide domain coverage across major omics areas on demand.

How do I prepare a reference-driven plan for RNA-seq differential expression?▼

You prepare a reference-driven plan for RNA-seq differential expression by asking for the exact analysis needed. The system fetches domain-specific reference guidance including recommended QC checks and parameter choices from indexed topics.

Are the fetched bioinformatics pipelines natively executable?▼

No, the fetched bioinformatics pipelines are not natively executable. They are retrieved as expert references from SKILL.md and README materials to provide validated parameters rather than acting as native executable skills.

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