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Manual Reference Pages  -  BIO::PHYLO::UNPARSERS::NEXUS (3)

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NAME

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

CONTENTS

DESCRIPTION

This module turns a Bio::Phylo::Matrices::Matrix object into a nexus formatted matrix. It is called by the Bio::Phylo::IO facade, don’t call it directly. You can pass the following additional arguments to the unparse call:



        # an array reference of matrix, forest and taxa objects:
        -phylo => [ $block1, $block2 ]
       
        # the arguments that can be passed for matrix objects,
        # refer to Bio::Phylo::Matrices::Matrix::to_nexus:
        -matrix_args => {}

        # the arguments that can be passed for forest objects,
        # refer to Bio::Phylo::Forest::to_nexus:
        -forest_args => {}

        # the arguments that can be passed for taxa objects,
        # refer to Bio::Phylo::Taxa::to_nexus:
        -taxa_args => {}       
       
        OR:
       
        # for backward compatibility:
        -phylo => $matrix



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 nexus serializer is called by the Bio::Phylo::IO object.
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:

<B>Rutger A VosB>, <B>Jason CaravasB>, <B>Klaas HartmannB>, <B>Mark A JensenB> and <B>Chase MillerB>, 2011. Bio::Phylo - phyloinformatic analysis using Perl. BMC Bioinformatics <B>12B>:63. <http://dx.doi.org/10.1186/1471-2105-12-63>

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perl v5.20.3 BIO::PHYLO::UNPARSERS::NEXUS (3) 2014-02-08

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