[Bioperl-l] Information content of alignment
s9904982 at sms.ed.ac.uk
Thu May 13 09:32:19 EDT 2004
Not quite sure what you mean by 'information content'. You can access a
single column of an alignment using the slice() function:
$aln2 = $aln->slice(20, 30)
which returns another AlignI object. So something like;
my $column=$aln->slice($_, $_);
# $column is now an AlignI object
# do something with it....
you can get the documentation with
% perldoc Bio::Align::AlignI
If you let me know what you want to do with the column, maybe I can give
some more advice.
On Wed, 2004-05-12 at 18:56, Malay wrote:
> Hi Bioperlers:
> Perdon my ignorance. I could not remove by haze about the numerous
> bioperl modules. I looked as AlignI interface but could not gather the
> answer to my question:
> Is there any way to quickly calculate information content of each column
> of the alignment in bioperl?
> Any pointers or source code would be appreciated. Otherwise, I have to
> get my hand dirty.
> Bioperl-l mailing list
> Bioperl-l at portal.open-bio.org
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