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Man Pages


Manual Reference Pages  -  BIO::NEXUS::TAXUNIT (3)

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NAME

Bio::NEXUS::TaxUnit - Represents a taxon unit in a NEXUS file

CONTENTS

SYNOPSIS

$tu = new Bio::NEXUS::TaxUnit($name, $seq);

DESCRIPTION

This module represents a taxon unit in a NEXUS file (in characters block or History block)

COMMENTS

FEEDBACK

All feedback (bugs, feature enhancements, etc.) are greatly appreciated.

AUTHORS



 Chengzhi Liang (liangc@umbi.umd.edu)
 Thomas Hladish (tjhladish at yahoo)



VERSION

$Revision: 1.23 $

METHODS

    new



 Title   : new
 Usage   : $otu = new Bio::NEXUS::TaxUnit($name, $seq);
 Function: Creates a new Bio::NEXUS::TaxUnit object
 Returns : Bio::NEXUS::TaxUnit object
 Args    : name and sequence of TaxUnit object



    clone



 Title   : clone
 Usage   : my $newtu = $set->clone();
 Function: clone an TaxUnit object
 Returns : TaxUnit object
 Args    : none



    set_name



 Title   : set_name
 Usage   : $tu->set_name($name);
 Function: sets the name of OTU
 Returns : none
 Args    : name



    get_name



 Title   : get_name
 Usage   : $tu->get_name();
 Function: Returns name
 Returns : name
 Args    : none



    set_seq



 Title   : set_seq
 Usage   : $tu->set_seq($seq);
 Function: sets the sequence of OTU
 Returns : none
 Args    : sequence



    get_seq



 Title   : get_seq
 Usage   : $tu->get_seq();
 Function: Returns sequence
 Returns : sequence (an array of characters or tokens)
 Args    : none



    get_seq_string



 Title   : get_seq_string
 Usage   : $taxunit->get_seq_string($tokens_flag);
 Function: Returns sequence
 Returns : sequence (a string, wherein tokens or characters are space-delimited
           if a true value has been passed in for $tokens)
 Args    : boolean tokens argument (optional)



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perl v5.20.3 BIO::NEXUS::TAXUNIT (3) 2007-09-24

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