thnx that solves the first problem! 2011/7/7 Peter Cock <p.j.a.cock@googlemail.com>
Hi all, i am trying to use a local instance of my galaxy to pre-format data stored at sra-ncbi. Does anyone has a working pipeline that (s)he could share. Here is the pipeline I am using, with some questions. 1/ download sra files to my server. 2/ transform them in fastq using the sra toolbox. 3/ upload them in galaxy, by using the 'add to data library' 4/ use the fastq groomer to enable to use the fast q in galaxy. Note: i guess that the data at sra are already in the fastq sanger
On Thu, Jul 7, 2011 at 7:14 AM, colin molter <colin.molter@gmail.com> wrote: format.
So it could be nice to be able to skip that point (it took 10 hours to groom a fastq of 25Gb).
Just upload load them and set the file format to fastqsanger (either when you upload, or afterwards via the pencil icon to edit the attributes - this is fast as it doesn't change the file).
Peter
-- Colin Molter University of Brussels - InSilico Team - http://insilico.ulb.ac.be/