Re: [Gusdev-gusdev] Plugin for GenBank files

[Jinal J. <jjh...@vb...>]

Ed,

You need to look into
dots.nafeatureimp (or dots.nafeature 
view/dots.transcript/dots.rnafeature....views.)
dots.nalocation,
dots.nasequence,
dots.nagene,
dots.naentry,
dots.nafeaturecomment,
dots.nafeaturenagene,
dots.naprotein,
dots.nafeaturenaprotein,
dots.nasequenceorganelle
tables.

for entried made by gbparser




On Friday 24 September 2004 01:52 pm, Ed Robinson wrote:
> Yes, please pass any extra scripts along.  To your recollection, which
> features does it import?
>
> thanks
> -Ed
>
> > From: Jinal Jhaveri <jjh...@vb...>
> > Date: 2004/09/24 Fri PM 01:40:12 EDT
> > To: ed_...@be...
> > Subject: Re: [Gusdev-gusdev] Plugin for GenBank files
> >
> > Hi Ed,
> >
> > I haven't done development, but I have been using this since a long time.
> > GBparser will work in most cases . I used the word "most cases" because
> > it failes for some newly introduced field in the genbank. Though one
> > thing it doesn't parse is the GI: Number. I have written a small bioperl
> > script as an addendum to gbparser, if you want the GI number too
> >
> >
> > --Jinal
> >
> > On Friday 24 September 2004 01:29 pm, Ed Robinson wrote:
> > > I've found GBParser.pm which seems to do the trick.  It calls on some
> > > CBIL packages which parse GenBank files.  Nice, elegant PERL (elegant
> > > is not normally a word I associate with PERL).  If anyone out there has
> > > done development on these, I'd like to chat a bit to make sure I have a
> > > full grasp on these packages before I start trying to parse data.
> > >
> > > thanks
> > > -Ed
> > >
> > > > From: Ed Robinson <ed_...@be...>
> > > > Date: 2004/09/24 Fri PM 01:10:06 EDT
> > > > To: <gus...@li...>
> > > > Subject: [Gusdev-gusdev] Plugin for GenBank files
> > > >
> > > > Has anyone written a (partial) plugin for extracting data from
> > > > GenBank data?  I have a copy of the annotated Crypto data I pulled
> > > > via the NCBI seq viewer and I want to load this data into GUS. 
> > > > Please let me know if there is anything ready to use to load any part
> > > > of this data.
> > > >
> > > > thanks in advance,
> > > > -Ed
> > > >
> > > >
> > > > Ed Robinson
> > > > 255 Deerfield Rd
> > > > Bogart, GA 30622
> > > > (706)425-9181
> > > > http://www.electedrobinson.com
> > > >
> > > > --Learn more about the face of your neighbor, and less about your
> > > > own. -Sargent Shriver
> > > >
> > > >
> > > >
> > > >
> > > >
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> > > Ed Robinson
> > > 255 Deerfield Rd
> > > Bogart, GA 30622
> > > (706)425-9181
> > > http://www.electedrobinson.com
> > >
> > > --Learn more about the face of your neighbor, and less about your own.
> > >          -Sargent Shriver
> > >
> > >
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