Hello, I have a total 84 GB of Illumina reads (20 lanes total). I wasn't sure if I could analyze this amount of data on the public server or if this would bog down the system. I am looking to do a gene expression comparison between two groups of 10 animals using Tophat and Cufflinks. Can anyone tell me if this is okay or if I must try and use the Cloud for this analysis.. I am assuming the FTP option is the best for uploading this data. Thank you,
David Martin -----Original Message----- From: [email protected] on behalf of Jeremy Goecks Sent: Fri 1/21/2011 12:41 PM To: Rory Kirchner Cc: Martin, David A.; [email protected] Subject: Re: [galaxy-user] Galaxy for gene expression comparison > > > I have patched galaxy to have cuffdiff handle replicates and to do > normalization, when that gets merged into the main branch your workflow will > be the same except you won't have to merge all of the bam files from each > condition together to use cuffdiff. > Hi all, I merged Rory's changes into galaxy-central, so Cuffdiff now supports replicates. I'll see what I can do for Cuffcompare; in the near-term, repeated merging using Cuffcompare will produce a GTF file that is both correct and usable with Cuffdiff. Thanks, J.
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