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human-cell-atlas

Query the Human Cell Atlas portal for reference datasets by tissue and organism.

Updated Apr 19, 2026
Search Tags:#reference#single-cell#atlas#annotation#datasets#data-portal
One-click install
npx skills add https://github.com/CHENyiru3/AI-Skills-Collections --skill human-cell-atlas
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: human-cell-atlas
Source: https://github.com/CHENyiru3/AI-Skills-Collections/tree/main/skills-market/compbio/databases/human-cell-atlas
Command: npx skills add https://github.com/CHENyiru3/AI-Skills-Collections --skill human-cell-atlas

SYSTEM DOCUMENTATION & REQUIREMENTS

What problem does it solve?

Researchers need quick access to curated single-cell reference datasets, markers, and atlases to benchmark analyses and contextualize results.

Core Features & Use Cases

  • Locate and compare reference datasets from the Human Cell Atlas data portal by tissue, organism, and technology.
  • Retrieve published cell-type markers and standard atlases to guide annotation and validation.
  • Use case: compare your study's cell-type annotations against an established reference atlas to assess concordance.

Quick Start

Locate datasets and atlases relevant to your tissue and organism in the HCA portal to anchor your analysis.

Frequently Asked Questions about human-cell-atlas

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

FAQPage Schema
How do I find single-cell reference datasets from the Human Cell Atlas for my tissue?▼

To find single-cell reference datasets, query the Human Cell Atlas data portal using tissue and organism filters to locate high-quality references and export metadata for downstream analysis.

Can I compare my cell-type annotations against an established reference atlas?▼

Yes, you can compare your study's cell-type annotations against an established Human Cell Atlas reference atlas to assess concordance and validate your analysis results.

What is the best way to retrieve published cell-type markers for single-cell annotation?▼

The best way to retrieve cell-type markers is to locate standard atlases and published reference datasets from the Human Cell Atlas to guide your annotation and validation workflow.

Does the Human Cell Atlas data portal support filtering reference datasets by technology?▼

Yes, the Human Cell Atlas data portal supports filtering reference datasets by tissue, organism, and technology to help you locate and compare references across multiple technologies.

How do I export a reference list of single-cell atlases for benchmarking analysis?▼

You can export reference lists by querying the Human Cell Atlas data portal with specific tissue and organism filters, retrieving the metadata, and exporting the list for benchmarking analysis.

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