From: Suzanna L. <su...@be...> - 2007-08-22 14:03:21
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My question as well. All of the sequence features from Genbank are in the SO, but what I'm guessing you mean is not 'feature types', but the ability to have fuzzy edges on those features. Is that it? -S On Aug 21, 2007, at 8:41 PM, Eric Just wrote: > Hi Dave, > > Well there's two parts to the GenBank adaptor. One is how Apollo > displays and allows manipulation of a GenBank file that's only > slightly modified from Apollo's original implementation. On the > server side, we can generate GenBank and update Chado fairly easily > from GenBank (or any other format for that reason) by using > Modware. We are currently using a very basic implementation with > just coding sequences. What do you mean by richer feature set? > > Eric > > On 8/21/07, David Emmert <em...@mo...> wrote: I'm > curious, Eric, > > Can your GenBank adaptor handle the richer feature set which GenBank > format can carry? > > -Dave > > On Tue, 21 Aug 2007 18:24, Eric Just wrote: > > yes, I'm game for updating our tool to use gff3 if it becomes > supported > > for Apollo. But the benefit of Genbank is that it is already > working, > > stable, and easy to generate and parse for the kind of data that > Apollo > > deals with. > > Eric > > > > On 8/21/07, Chris Mungall < cj...@fr...> wrote: > > > >> My vote: > >> > >> GFF3 ++ > >> Genbank -- > >> > >> On Aug 21, 2007, at 11:15 AM, Don Gilbert wrote: > >> > >>> > >>> On this GFF adaptor topic, its difference from Genbank format, > already > >>> supported by Apollo and with Chado loaders, doesn't seem that > much for > >>> data transport. It might be useful to look closely at Eric Just's > >>> use of > >>> Genbank files for apollo <> chado, and decide from that if a GFF > >>> adaptor > >>> for such is a useful addition.- Don Gilbert > >>> > >>> -- d.gilbert--bioinformatics--indiana-u--bloomington-in-47405 > >>> -- gil...@in...--http://marmot.bio.indiana.edu/ > >>> > >>> > ---------------------------------------------------------------------- > >>> --- > >>> This SF.net email is sponsored by: Splunk Inc. > >>> Still grepping through log files to find problems?Stop. > >>> Now Search log events and configuration files using AJAX and a > >>> browser. > >>> Download your FREE copy of Splunk now >>http://get.splunk.com/ > >>> _______________________________________________ > >>> Gmod-schema mailing list > >>> Gmo...@li... > >>> https://lists.sourceforge.net/lists/listinfo/gmod-schema > >>> > > > > ---------------------------------------------------------------------- > --- > This SF.net email is sponsored by: Splunk Inc. > Still grepping through log files to find problems? Stop. > Now Search log events and configuration files using AJAX and a > browser. > Download your FREE copy of Splunk now >> http://get.splunk.com/ > _______________________________________________ > Gmod-schema mailing list > Gmo...@li... > https://lists.sourceforge.net/lists/listinfo/gmod-schema > > ---------------------------------------------------------------------- > --- > This SF.net email is sponsored by: Splunk Inc. > Still grepping through log files to find problems? Stop. > Now Search log events and configuration files using AJAX and a > browser. > Download your FREE copy of Splunk now >> http://get.splunk.com/ > _______________________________________________ > Gmod-devel mailing list > Gmo...@li... > https://lists.sourceforge.net/lists/listinfo/gmod-devel |