Difference between revisions of "Sra-tools"
(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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module load sra-tools | module load sra-tools | ||
| − | the chief command for | + | the chief command for this toolbox 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 | 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 | ||
Revision as of 16:49, 23 March 2016
To load
module load sra-tools
the chief command for this toolbox 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
