Re: headers .gbk[Scanned]

Hi Jolyon

You can help me use the code, I need only search for the file geneid
alt_Celera_chr22.gbk. I saw but I do not use code.

Thank you for your attention



2010/9/28 Jolyon Holdstock <[email protected]>

> Hi,
>
> The db_xref annotations aren't picked up (please correct me if I'm
> wrong) so depending on how many files you are handling one way is to
> change all the gene ID annotations from:
>
> /db_xref="GeneID:1095448"  to  /GeneID="1095448"
>
> You can then create a ComparableTerm to extract these:
>
> ComparableTerm geneIDTerm =
> RichObjectFactory.getDefaultOntology().getOrCreateTerm("GeneID");
>
> There is an example in the cookbook on how you can use this:
>
> http://www.biojava.org/wiki/BioJava:Cookbook:Annotations:List2
>
> hope this helps,
>
> J
>
> -----Original Message-----
> From: Alex Silva [mailto:[email protected]]
> Sent: 28 September 2010 02:17
> To: [email protected]
> Subject: [Biojava-l] headers .gbk[Scanned]
>
> Good evening,
>
> I need a code to read the headers of a file .Gbk. I need to locate the
> occurrences of geneid. Can anyone help me?
>
> --
> Alex Silva
> G.R.A. Sistemas Corporativos
> msn: [email protected]
> 55-9165-7378
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-- 
Alex Silva
G.R.A. Sistemas Corporativos
msn: [email protected]
55-9165-7378
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