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sra-data

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Download raw sequencing reads from NCBI SRA using sra-tools (prefetch, fasterq-dump, vdb-validate) or the ENA mirror. Use when pulling FASTQ for SRR/ERR/DRR accessions, deciding between SRA-direct, ENA mirror, or AWS/GCP cloud mirror (STRIDES), handling --include-technical for 10x and other single-cell records, validating with MD5/vdb-validate, navigating SRR/SRX/SRS/SRP/PRJNA hierarchy, or finding accessions via pysradb. Encodes SRA cloud-egress economics, the fasterq-dump uncompressed-scratch trap, and the --max-size default that silently truncates large prefetches.

When to use

• pulling FASTQ for SRR/ERR/DRR accessions
• deciding between SRA-direct, ENA mirror, or AWS/GCP cloud mirror
• handling --include-technical for 10x and other single-cell records
• validating with MD5/vdb-validate
• navigating SRR/SRX/SRS/SRP/PRJNA hierarchy
• finding accessions via pysradb

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