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alterlab-ena

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Programmatic ENA data access for genomics research.

Education & Research#api#bioinformatics#genomics#taxonomy#ena#data-retrieval
AuthorAlterLab-IEU
Version1.0.0
Installs0

System Documentation

What problem does it solve?

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 data through REST APIs and FTP for genomics and bioinformatics pipelines.

Core Features & Use Cases

  • Data types and organization: Studies/Projects, Samples, Raw Reads, Assemblies, Sequences, Analyses, Taxonomy Records.
  • Programmatic access: ENA Portal API, ENA Browser API, ENA Taxonomy REST API, Cross-Reference Service, CRAM Reference Registry.
  • Data retrieval formats and methods: metadata in JSON/TSV/XML, sequence data in FASTA/FASTQ/EMBL, downloads via FTP/Aspera or enaBrowserTools.
  • Common use cases: search samples by study, retrieve runs, download assemblies, cross-reference records, bulk data access.

Quick Start

Use the Portal API to search for samples by study_accession and retrieve results in JSON.

Dependency Matrix

Required Modules

None required

Components

references

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Please help me install this Skill:
Name: alterlab-ena
Download link: https://github.com/AlterLab-IEU/AlterLab-Academic-Skills/archive/main.zip#alterlab-ena

Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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