Re: [Gusdev-gusdev] Plugin for GenBank files

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Thanks Deborah,
Uptil now I and some other users didn't know about this. Infact there was also 
a mail sent to the group regarding the same

thanks
--Jinal
On Monday 27 September 2004 08:17 am, Deborah F. Pinney wrote:
> The GBParser puts GI:Number into the secondary_identifier field of
> dots.externalnasequence.
>
>                                             -Deborah
>
> On Fri, 24 Sep 2004, Jinal Jhaveri wrote:
> > 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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> >>>>> _______________________________________________
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> >>>>> Gus...@li...
> >>>>> https://lists.sourceforge.net/lists/listinfo/gusdev-gusdev
> >>>>
> >>>> 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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> >>
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