On Wed, Jun 1, 2011 at 5:02 PM, John David Osborne <[email protected]> wrote: > I noticed that for our new Ilumina data (which generate Sanger format) the > FastQ groomer output is identical to the Ilumina FastQ input file. > > I was hoping to go ahead and just use the raw FastQ files as input (saving > disk space) for computing quality statistics to look at box plots, but it > appears that the tool "Compute Quality Statistics" appears to require that > the data have been run through FastQ Groomer first. > > Is there a way to get around this and is this a bug? I assuming this is some > sort of safety measure built into this tool? > > -John
If you know your data is already in Sanger FASTQ format, you can say this when uploading the data into Galaxy. Or, use the "pencil" icon to edit the attributes and change the file type. This doesn't change the file itself on disk. Peter ___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
