ena-database

What problem does it solve?

This Skill provides programmatic access to the European Nucleotide Archive (ENA), enabling researchers to retrieve DNA/RNA sequences, raw reads, and genome assemblies efficiently, thereby streamlining bioinformatics pipelines and data analysis.

Core Features & Use Cases

• Data Retrieval: Download sequences, FASTQ files, and genome assemblies by accession numbers.
• Metadata Search: Query ENA for studies, samples, and experiments based on various criteria.
• API Integration: Utilize REST APIs for advanced searching and data access.
• Use Case: A researcher needs to download all raw sequencing reads (FASTQ files) for a specific study accession (e.g., PRJEB1234) to perform downstream analysis.

Quick Start

Use the ena-database skill to download all FASTQ files for the study accession PRJEB1234.