Which biological data formats are supported?

The skill supports a wide range of formats including FASTQ for raw reads, FASTA for sequences, BAM/CRAM for alignments, and XML/JSON for metadata.

Can I perform complex metadata searches with this skill?

Yes, it utilizes the ENA Portal API to filter by study accession, sample attributes, taxonomy, date ranges, and other metadata fields.

What is the ENA Database skill for Claude Code?

It is a specialized capability that allows Claude to programmatically access the European Nucleotide Archive (ENA) for retrieving genomic data, raw sequencing reads, and associated metadata.

Does the skill manage API rate limits?

Yes, it includes best practices for respecting the ENA API limit of 50 requests per second, including exponential backoff and batching strategies.

How does this skill handle large genomic datasets?

For files larger than 100MB, the skill provides implementation patterns for bulk downloading via FTP or Aspera to ensure performance and reliability.

ENA Bioinformatics Database

Name: ENA Bioinformatics Database
Author: Microck

byMicrock

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数据科学与机器学习

Interfaces with the European Nucleotide Archive to programmatically retrieve DNA/RNA sequences, raw reads, and genome metadata.

关于

The ENA Database skill enables Claude to interact directly with the European Nucleotide Archive (ENA) via REST APIs and FTP. It streamlines the retrieval of nucleotide sequence data, raw sequencing reads (FASTQ), and comprehensive metadata for studies, samples, and assemblies. This skill is essential for bioinformaticians and researchers who need to automate data collection for genomics pipelines, perform taxonomic lookups, or manage high-throughput sequencing data within their development environment.

主要功能

Bulk data transfer patterns for FTP and Aspera integration
Direct retrieval of DNA/RNA sequences in FASTA, FASTQ, and EMBL formats
Cross-reference searching to link ENA records with external biological databases
Advanced metadata searching using ENA Portal and Browser APIs
81 GitHub stars
Comprehensive taxonomic information queries and lineage tracking

使用场景

Searching for and downloading specific genome assemblies by accession or metadata criteria
Automating the retrieval of raw sequencing reads for bioinformatics analysis pipelines
Integrating ENA data into genomics research software via standardized REST API patterns

关于

主要功能

Bulk data transfer patterns for FTP and Aspera integration
Direct retrieval of DNA/RNA sequences in FASTA, FASTQ, and EMBL formats
Cross-reference searching to link ENA records with external biological databases
Advanced metadata searching using ENA Portal and Browser APIs
81 GitHub stars
Comprehensive taxonomic information queries and lineage tracking

使用场景

Searching for and downloading specific genome assemblies by accession or metadata criteria
Automating the retrieval of raw sequencing reads for bioinformatics analysis pipelines
Integrating ENA data into genomics research software via standardized REST API patterns