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bio-sra-data

Maintainer FreedomIntelligence · Last updated April 1, 2026

Download raw sequencing data from NCBI SRA with fasterq-dump.

OpenClawNanoClawAnalysisReproductionbio-sra-data🧠 bioos extended suitebioos extended bioinformatics suitedownload

Original source

FreedomIntelligence/OpenClaw-Medical-Skills

https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-sra-data

Maintainer
FreedomIntelligence
License
MIT
Last updated
April 1, 2026

Skill Snapshot

Key Details From SKILL.md

2 min

Key Notes

  • Download raw sequencing data from the Sequence Read Archive using the SRA toolkit.
  • sudo apt install sra-toolkit.

Source Doc

Excerpt From SKILL.md

conda (recommended)

conda install -c bioconda sra-tools

fasterq-dump - Download FASTQ (Recommended)

Fast, multithreaded FASTQ extraction. Preferred over fastq-dump.


## Download single SRA run as FASTQ

fasterq-dump SRR12345678

Use cases

  • Use bio-sra-data for genomics and bioinformatics workflows.
  • Apply bio-sra-data to sequencing, variant, or omics analysis tasks.

Not for

  • Do not rely on this catalog entry alone for installation or maintenance details.

Upstream Related Skills

  • entrez-search - Search SRA database to find accessions
  • sequence-io - Read downloaded FASTQ files with Biopython
  • sequence-io/paired-end-fastq - Handle paired R1/R2 files
  • alignment-files - Align downloaded reads

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