Re: [Gusdev-gusdev] amino acid data upload to GUS

[Deborah F. P. <pi...@pc...>]

Take a look at InsertNewExternalSequences, it is quite flexible and may do 
what you want. 

                                                 Debbie
                                  



On Tue, 18 May 2004, Sucheta Tripathy wrote:

> Hi Debbie,
> 
> We have protein data after using the gene calls. These are present in raw
> fasta format. To these sequences we did the signalP analysis and other
> annotation. I saw the table format and we can easily parse them onto the
> column names, but I was wondering before that I need to put them onto
> aasequenceImp table. So I thought if I can put my raw protein sequences to
> the table with some plugin.
> 
> Thanks
> 
> Sucheta
> > Hi Sucheta,
> >
> >
> > What is the data that you want to load? It is hard to answer the question
> > generally.
> >
> > As you probably know already we load data from the protein nr database
> > files from NCBI and protein motif data from prodom and cdd. Those are
> > loaded with LoadNRDB.pm (written specifically for NCBI nrdb protein data)
> > and InsertNewExternalSequences.
> >
> > We also load signal peptide and transmembrane results from the analysis
> > of our assemblies. Those plugins are not in cvs repository at Sanger and
> > may not be appropriate for your use.
> >
> >                                                         Debbie
> > On Tue, 18 May 2004, Sucheta Tripathy
> > wrote:
> >
> >>
> >> Hello All,
> >>
> >> Has anyone tried uploading amino acid related data to GUS(mainly to
> >> aasequenceImp  and related tables). Is there a plugin for that? I have
> >> lots of amino acid related data like the signalP output and other
> >> annotations.
> >>
> >> Any suggestions?
> >>
> >> Thanks
> >>
> >> Sucheta
> >>
> >>
> >>
> >>
> >
> 
> 
>