ena-database
Access European Nucleotide Archive via API/FTP. Retrieve DNA/RNA sequences, raw reads (FASTQ), genome assemblies by accession, for genomics and bioinformatics pipelines. Supports multiple formats.
npx skills add LeonChaoX/qinyan-academic-skills --skill ena-database --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
# ENA Database ## Overview The European Nucleotide Archive (ENA) is a comprehensive public repository for nucleotide sequence data and associated metadata. Access and query DNA/RNA sequences, raw reads, genome assemblies, and functional annotations through REST APIs and FTP for genomics and bioinformatics pipelines. ## When to Use This Skill This skill should be used when: - Retrieving nucleotide sequences or raw sequencing reads by accession - Searching for samples, studies, or assemblies by metadata criteria - Downloading FASTQ files or genome assemblies for analysis - Querying taxonomic information for organisms - Accessing sequence annotations and functional data - Integrating ENA data into bioinformatics pipelines - Performing cross-reference searches to related databases - Bulk downloading datasets via FTP or Aspera ## Core Capabilities ### 1. Data Types and Structure ENA organizes data into hierarchical object types: **Studies/Projects** - Group related data and control release dates. Studies are the primary unit for citing archived data. **Samples** - Represent units of biomaterial from which sequencing libraries were produced. Samples must be registered before submitting m
- Overview
- When to Use This Skill
- Core Capabilities
- 1. Data Types and Structure
- 2. Programmatic Access
- 3. Searching and Retrieving Data
- 4. Data Retrieval Formats
- 5. Common Use Cases
- 6. Integration with Analysis Pipelines
- 7. Best Practices
- Resources
- references/
What does the ena-database skill do?
Access European Nucleotide Archive via API/FTP. Retrieve DNA/RNA sequences, raw reads (FASTQ), genome assemblies by accession, for genomics and bioinformatics pipelines. Supports multiple formats.
How do I install it?
Run `npx skills add LeonChaoX/qinyan-academic-skills --skill ena-database --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From LeonChaoX/qinyan-academic-skills, a repository with 759 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.