srachasracha is a fast, parallel Sequence Read Archive (SRA) downloader and FASTQ converter written in Rust. It retrieves sequencing data from NCBI SRA run, study, or BioProject accessions, converts SRA records to FASTQ, and compresses output using multithreaded gzip. It supports batch processing, paired-end read splitting, resumable downloads, metadata extraction, and integrity verification. It provides a high-performance alternative to fasterq-dump for retrieving sequencing data.Versions

v0.7.0 (default)

Tags: bioinformatics, SRA, NCBI, FASTQ, sequencing, data download, read conversion, paired-end sequencing, RustParameters

accessions (str) required: Comma-separated NCBI SRA run, study, or BioProject accessions. Examples: SRR28588231, ERR1018173, PRJNA675068.

split_mode (enum): Select how sequencing reads are divided into FASTQ files. split-files creates separate files for paired-end reads; split-3 separates paired and unpaired reads; split-spot and interleaved keep reads together. Options: split-files, split-3, split-spot, interleaved

download_format (enum): SRA download format. sra preserves original quality scores, whereas sralite uses simplified quality scores. Options: sra, sralite

metadata (enum): Optional sequencing metadata sidecar format for each accession. Options: none, tsv, json, both

prefer_ena (bool): Attempt to download precomputed FASTQ files from ENA mirrors before falling back to the NCBI SRA download path.

Links

Home page

Documentation

GitHub repository

License: MIT

Cite as: sracha: Fast SRA downloader and FASTQ converter written in Rust. rnabioco. GitHub: https://github.com/rnabioco/sracha-rs. Documentation: https://rnabioco.github.io/sracha-rs/

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