Retrieve nucleotide sequences, reads, and assemblies from ENA via REST and FTP.
npx skills add https://github.com/Hung-3008/agusta --skill ena-database-hung-3008
Please help me install this Agent Skill. Skill: ena-database Source: https://github.com/Hung-3008/agusta/tree/main/.agents/skills/ena-database Command: npx skills add https://github.com/Hung-3008/agusta --skill ena-database-hung-3008
Access to ENA data via REST APIs and FTP enables researchers to retrieve nucleotide sequences, raw reads, and genome assemblies for genomics pipelines, analysis, and cross-database research without manual data wrangling.
Query ENA by accession or study using Portal or Browser APIs and download data via FTP or enaBrowserTools.
High-intent search queries and answers about installing and using this skill.
To retrieve nucleotide sequences and raw reads from ENA by accession, query the Portal or Browser APIs and download data via FTP or Aspera. This supports FASTQ, BAM/CRAM, and FASTA formats for pipeline integration.
The ENA REST API returns metadata in XML, JSON, TSV, and CSV formats. You can search studies, samples, and assemblies by metadata fields using the Portal API for structured genomics data retrieval.
Yes, you can download bulk sequence data and genome assemblies from ENA via FTP or Aspera. The interface also supports command-line tools like enaBrowserTools for automated large-scale retrieval of raw reads and assemblies.
To find genome assemblies for a specific taxon using ENA, query the Taxonomy REST API to obtain taxonomic lineage and cross-reference data, then retrieve associated assemblies through the Portal API.
Yes, the ENA Cross-Reference Service supports cross-reference queries to external databases. You can map accession numbers across data types and retrieve corresponding records for integrated genomics research.
When querying ENA APIs for large-scale sequence retrieval, you must handle rate-limiting to avoid request failures. For bulk downloads of raw reads or assemblies, use FTP or Aspera instead of REST APIs to bypass payload constraints.
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OwnLabAIQuery ENA nucleotide data and metadata via REST APIs and FTP.
