[Bioperl-l] Error in constructing Phylogenetic tree using BioPerl
suji_ramin at yahoo.com
Tue Jun 26 04:58:36 UTC 2007
This is sujatha from singapore. I am trying to construct phylo tree using DNAStatistics and Kirma method. But I am getting the following error message. It would be nice if you could help me resolve this problem asap.
Must supply a valid Bio::Align::AlignI for the _align parameter in the distance
# for a dna alignment can also use ProteinStatistics
@aln = Bio::AlignIO->new(-file => 'out4.fa', -format=>'clustalw');
$stats = Bio::Align::DNAStatistics->new;
$mat = $stats->distance( -align => @aln,-method => 'Kimura');
$dfactory = Bio::Tree::DistanceFactory->new(-method => 'NJ');
$tree = $dfactory->make_tree($mat);
I am using clustalw formatted fasta file with more than one sequence
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