[Bioperl-l] translating Sequence in 6 open reading frames
joecker at freenet.de
joecker at freenet.de
Mon Dec 12 10:26:35 EST 2005
Hello,
I try to use BioPerl for the translation of a sequence in 6 reading frames.
The Sequence is stored in a variable.
First I create a new Seq object with:
my $seqobj = Bio::Seq->new ( -seq => $seq,
-alphabet => 'DNA',
);
afterwards I use the package Bio::SeqUtils for translating:
my $util = new Bio::SeqUtils
my $polypeptide_3char = Bio::SeqUtils->seq3($seqobj);
Bio::SeqUtils->seq3($seqobj, $polypeptide_3char);
my @seqs = Bio::SeqUtils->translate_6frames($seqobj);
Unfortunately I was not able to create the object. The program stops, but
there is no error.
I hope someone can help me.
Thanks a lot for your help,
Anika
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