[Bioperl-l] bl2seq for many
cjfields at uiuc.edu
Fri May 16 11:24:31 EDT 2008
Not sure what you mean here, as bl2seq uses two sequences. From the
"Bl2seq performs a comparison between two sequences using either the
blastn or blastp algorithm. Both sequences must be either nucleotides
or proteins. The options may be obtained by executing 'bl2seq -'."
If you mean running multiple rounds of bl2seq with varying sequences,
the boilerplate demo in the Bio::Tools::Run::StandAloneBlast synopsis
could be modified to do what you want:
my $factory = Bio::Tools::Run::StandAloneBlast->new(-program =>
# grab two sequences at a time (loop?) and run bl2seq
my $bl2seq_report = $factory->bl2seq($seq1, $seq2);
Does this answer your question?
On May 16, 2008, at 9:32 AM, Aparna Pallavajjala wrote:
> I would like to know if anyone tried to do bl2seq for multiple
> sequences at a time?
> Please let me know how.
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College of Veterinary Medicine
University of Illinois Urbana-Champaign
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