30 Sep 19:21
Re: [Gmod-gbrowse] exporting contigs with CDSes, stored via Bio::DB::GFF, into individual GenBank records?
From: Don Gilbert <gilbertd <at> cricket.bio.indiana.edu>
Subject: Re: [Gmod-gbrowse] exporting contigs with CDSes, stored via Bio::DB::GFF, into individual GenBank records?
Newsgroups: gmane.comp.lang.perl.bio.general
Date: 2008-09-30 17:23:56 GMT
Subject: Re: [Gmod-gbrowse] exporting contigs with CDSes, stored via Bio::DB::GFF, into individual GenBank records?
Newsgroups: gmane.comp.lang.perl.bio.general
Date: 2008-09-30 17:23:56 GMT
Eric, If the Bio::DB::GFF database to Genbank submission route doesn't get you where you want, you can also look at storing your data in a GMOD Chado database, then using Bulkfiles to produce the Genbank Submission file set. - Don Gilbert Find a GenBank Submit output from Chado dbs in this tool release http://eugenes.org/gmod/GMODTools/ GMODTools-1.2b.zip 20-Jun-2008 - adding (in progress) Genbank Submission table writer, 'bulkfiles -format=genbanktbl', with output suited to submit to NCBI as per these specifications http://www.ncbi.nlm.nih.gov/Genbank/eukaryotic_genome_submission.html see also http://gmod.org/wiki/GMODTools and this test case with genbank-submit output http://gmod.org/wiki/GMODTools_TestCase
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