[Bioperl-l] Convert Fasta to Phylip

[Ferdinand Marlétaz]

Hi,

I'd like to ask something : I have a fasta file with pieces of manually 
controlled alignement (with - for "Gaps") and I've tried to read it 
with AlignIO ( just like my $in  = Bio::AlignIO->new(-file => 
$inputfilename , '-format' => 'fasta');    ) in order to convert it to 
phylip formatted sequence but... it reply me MSG: Got a sequence with 
no letters in it cannot guess alphabet [] . So, I'd like to understand 
how to convert a fasta alignement containing file into a phylip file 
for phylogeny.
Thank you very much !

Cheers

Ferdi

	



_____________________________
Ferdinand Marlétaz	
Evolution et phylogénie des métazoaires
UMR 6540 DIMAR
Rue Batterie des Lions
13007 MARSEILLE
Tel. 04 91 04 16 54
Port. 06 30 35 58 49
Mail. Ferdinand.Marletaz at ens-lyon.fr
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