Have you considered running RAST after the contigs are reorder/aligned to your reference genome?
On 7/13/2013 5:56 AM, Shlomo Blum wrote: > Actually it is the NCBI's PGAAP output file that had an empty "VERSION" > field. The RAST output works fine for me. However, I must say that when > I use the "reorder contigs" option, I "loose" the annotations after the > first iteration. The first alignment looks fine, but then, in the last > iteration, I got only a "asap" field in the annotation - when using the > RAST output. > > > On Fri, Jul 12, 2013 at 11:58 PM, Shlomo Blum > <shlomo.b...@mail.huji.ac.il <mailto:shlomo.b...@mail.huji.ac.il>> wrote: > > I had a similar problem. The RAST genbank file has an empty > "VERSION" entry. You can add "something" to this entry and if I > remember it right this made it work for me. > > Shlomo > > > On Fri, Jul 12, 2013 at 3:32 AM, Bigelow, Simone > <simone.bige...@okstate.edu <mailto:simone.bige...@okstate.edu>> wrote: > > I have a draft genome which has been annotated using RAST but I > cannot get my RAST annotations to show up when using MAUVE to do > an alignment. The GenBank file created by RAST does not have an > accession number and simply calls it unknown and uses the contig > id as the locus. Is there any way to get my gbk file created > using RAST to show the annotations? > > > ------------------------------------------------------------------------------ > See everything from the browser to the database with AppDynamics > Get end-to-end visibility with application monitoring from > AppDynamics > Isolate bottlenecks and diagnose root cause in seconds. > Start your free trial of AppDynamics Pro today! > > http://pubads.g.doubleclick.net/gampad/clk?id=48808831&iu=/4140/ostg.clktrk > _______________________________________________ > Mauve-users mailing list > Mauve-users@lists.sourceforge.net > <mailto:Mauve-users@lists.sourceforge.net> > https://lists.sourceforge.net/lists/listinfo/mauve-users > > > > > -- > *Dr. Shlomo Blum* > *Dept. of Bacteriology* > *Kimron Veterinary Inst.* > *POB 12* > *Bet Dagan, 50250* > *Israel* > *Tel.: 972-3-9681680* > > > > > -- > *Dr. Shlomo Blum* > *Dept. of Bacteriology* > *Kimron Veterinary Inst.* > *POB 12* > *Bet Dagan, 50250* > *Israel* > *Tel.: 972-3-9681680* > > > > ------------------------------------------------------------------------------ > See everything from the browser to the database with AppDynamics > Get end-to-end visibility with application monitoring from AppDynamics > Isolate bottlenecks and diagnose root cause in seconds. > Start your free trial of AppDynamics Pro today! > http://pubads.g.doubleclick.net/gampad/clk?id=48808831&iu=/4140/ostg.clktrk > > > > _______________________________________________ > Mauve-users mailing list > Mauve-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/mauve-users > ------------------------------------------------------------------------------ See everything from the browser to the database with AppDynamics Get end-to-end visibility with application monitoring from AppDynamics Isolate bottlenecks and diagnose root cause in seconds. Start your free trial of AppDynamics Pro today! http://pubads.g.doubleclick.net/gampad/clk?id=48808831&iu=/4140/ostg.clktrk _______________________________________________ Mauve-users mailing list Mauve-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/mauve-users
