Rutger Vos > Bio-Phylo > Bio::Phylo::Unparsers::Fasta

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NAME ^

Bio::Phylo::Unparsers::Fasta - Serializer used by Bio::Phylo::IO, no serviceable parts inside

DESCRIPTION ^

Definition lines for each FASTA records are either (first choice) created from the generic 'fasta_def_line' annotation which can be manipulated like so:

 $datum->set_generic( 'fasta_def_line' => $line )

So you can retrieve it by calling:

 my $line = $datum->get_generic('fasta_def_line');

Alternatively the name of the $datum is used, or, lacking that, the name of the associated taxon, if any.

SEE ALSO ^

There is a mailing list at https://groups.google.com/forum/#!forum/bio-phylo for any user or developer questions and discussions.

Bio::Phylo::IO

The fasta unparser is called by the Bio::Phylo::IO object. Look there to learn how to create phylip formatted files.

Bio::Phylo::Manual

Also see the manual: Bio::Phylo::Manual and http://rutgervos.blogspot.com.

CITATION ^

If you use Bio::Phylo in published research, please cite it:

Rutger A Vos, Jason Caravas, Klaas Hartmann, Mark A Jensen and Chase Miller, 2011. Bio::Phylo - phyloinformatic analysis using Perl. BMC Bioinformatics 12:63. http://dx.doi.org/10.1186/1471-2105-12-63

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