Sra-tools

From wiki

Revision as of 16:48, 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...")

(diff) ← Older revision | Latest revision (diff) | Newer revision → (diff)

Jump to: navigation, search

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

Retrieved from "http://stab.st-andrews.ac.uk/wiki/index.php?title=Sra-tools&oldid=29"