Sra-tools

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Revision as of 17:48, 23 March 2016 by Rf (talk | contribs) (Created page with "To load module load sra-tools the chief command for thsi tool box is fastq-dump, which downloads the SRA you are looking for Identifying the right SRA name is an issue, so...")

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To load

module load sra-tools

the chief command for thsi tool box is fastq-dump, which downloads the SRA you are looking for

Identifying the right SRA name is an issue, so it's good to be able to do a quick test to see if you have the name correct via

fastq-dump - X 5 -Z SRR390728

"-X 5" just downloads the first five reads, while "-Z" send them to STDOUT. If this doesn't return an error you can go ahead and download via

fastq-dump --split-files SRR390728

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