sratoolkit ☆
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Description:
Data tools for INSDC Sequence Read Archive
Type: Formula  |  Tracked Since: Dec 28, 2025
Links: Homepage  |  formulae.brew.sh
Category: Other
Tags: bioinformatics genomics ncbi data-processing cli
Install: brew install sratoolkit
About:
Sra-toolkit is a comprehensive suite of command-line tools for interacting with the Sequence Read Archive (SRA). It enables users to efficiently download, validate, and convert compressed SRA data into standard formats like FASTQ and BAM. This toolkit is essential for bioinformaticians needing to access and preprocess high-throughput sequencing data for downstream analysis.
Key Features:
  • Fastq-dump: Converts SRA files to standard FASTQ format
  • Sra-prefetch: Downloads SRA datasets efficiently
  • Sra-stat: Provides detailed statistical analysis of SRA data
  • Sra-tools: Validates and inspects SRA files
Use Cases:
  • Downloading genomic datasets from NCBI for local analysis
  • Converting proprietary SRA files to universal FASTQ format for alignment
  • Validating data integrity before starting computational pipelines
Alternatives:
  • Aspera CLI – Aspera provides faster raw transfer speeds for large files, but Sra-toolkit handles SRA-specific format validation and conversion natively.
  • Biopython – Biopython is a general-purpose library for bioinformatics, whereas Sra-toolkit is specialized for SRA data extraction and conversion.
Version History
Detected Version Rev Change Commit
Sep 16, 2025 10:14pm 0 VERSION_BUMP f3cdceca
Sep 16, 2025 4:46pm 0 VERSION_BUMP 8cadcabf
Sep 13, 2024 4:44am 0 VERSION_BUMP efac120f
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