[Bioperl-l] Indexing HMMER reports

Jason Stajich jason at bioperl.org
Mon Mar 9 23:54:54 EDT 2009


that's right - it is really just for indexing reports and not  
particularly useful beyond that.
you can parse a report with Bio::SearchIO or Bio::Tools::HMMer to get  
domains out.

On Mar 9, 2009, at 5:58 PM, Toni Hermoso Pulido wrote:

> Hello,
>
> I'm trying to index HMMER reports using:
> http://www.bioperl.org/wiki/Module:Bio::Index::Hmmer
>
> However, I have not found enough information in the module code  
> examples for being able to index and get info from those reports.
>
> I would like to get HSP alignments associated to hit accession codes  
> from reports distributed in several files.
>
> Does anyone have experience on this?
>
> After dumping variables, I think I'm just indexing report files, but  
> not its contents.
>
> Best regards,
>
> -- 
> Toni Hermoso Pulido
> http://www.cau.cat
> _______________________________________________
> Bioperl-l mailing list
> Bioperl-l at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/bioperl-l

Jason Stajich
jason at bioperl.org





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