In the cufflink site, they have annotation from ucsc,ncbi & ensemble. not sure which one to download and then load into galaxy? thanks, Tao
Sent from my iPhone On Aug 30, 2011, at 5:52 PM, "vasu punj" <pu...@yahoo.com> wrote: > If using Ensembl make sure it is properly formatted. > Vasu > > --- On Tue, 8/30/11, Peng, Tao <tp...@fhcrc.org> wrote: > > From: Peng, Tao <tp...@fhcrc.org> > Subject: [galaxy-user] annotation file for cufflinks > To: "Jennifer Jackson" <j...@bx.psu.edu>, "galaxy-user" > <galaxy-user@lists.bx.psu.edu> > Date: Tuesday, August 30, 2011, 1:52 PM > > Hi jen and galaxy users, when I try to use cufflinks in GALAXY and select > "use reference annotation", I am NOT sure how to get the annotation file in > GTF format for cufflinks. > > I was trying to down-load the annotation file from Illumina donated package > in Cufflink website, I am NOT sure this is the right way to go for? > > Thanks, > > > tao > > > -----Inline Attachment Follows----- > > ___________________________________________________________ > 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/
___________________________________________________________ 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/
