ENAPortal Search Runs Fastq
Search the European Nucleotide Archive (ENA) for sequencing RUNS (read_run) by taxonomy and library strategy, returning ready-to-use FASTQ download URLs. Unlike the study/sample searches, this hits the read_run result domain, which is the only one that exposes downloadable read files (fastq_ftp, submitted_ftp, sra_ftp) plus checksums (fastq_md5), sizes (fastq_bytes), library_strategy and instrument_platform. Use ENA query syntax: 'tax_eq(TAXID)' for an exact species (e.g., tax_eq(1280) = Staphy…
Overview
Search the European Nucleotide Archive (ENA) for sequencing RUNS (read_run) by taxonomy and library strategy, returning ready-to-use FASTQ download URLs. Unlike the study/sample searches, this hits the read_run result domain, which is the only one that exposes downloadable read files (fastq_ftp, submitted_ftp, sra_ftp) plus checksums (fastq_md5), sizes (fastq_bytes), library_strategy and instrument_platform. Use ENA query syntax: 'tax_eq(TAXID)' for an exact species (e.g., tax_eq(1280) = Staphylococcus aureus), 'tax_tree(TAXID)' to include descendants, optionally combined with 'library_strategy="WGS"'. Returns each run with FTP URLs you can wget/curl directly. No API key required.
Schema
JSON Schema the agent (or your API call) must match.
View JSON schemaExpandCollapse
Examples (1)
Default ENAPortal Search Runs Fastq call
Public-safe example · rate-limited
Identifiers
- Catalog ID
- tu_ENAPortal_search_runs_fastq
- Tool name
- ENAPortal_search_runs_fastq
- Added
- 2026-07-29 18:13Z
- Tags
- tooluniverse