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Man Pages


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

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NAME

Bio::NEXUS::WeightSet - Represents column weights in alignment ( for each character)

CONTENTS

SYNOPSIS

new Bio::NEXUS::WeightSet($name, \@weights, $iswt);

DESCRIPTION

A module representing column weights in alignment (for each character)

FEEDBACK

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

AUTHOR



 Chengzhi Liang (liangc@umbi.umd.edu)
 Weigang Qiu (weigang@genectr.hunter.cuny.edu)
 Thomas Hladish (tjhladish at yahoo)



CONTRIBUTORS



 Peter Yang (pyang@rice.edu)



METHODS

    new



 Title   : new
 Usage   : $node = new Bio::NEXUS::WeightSet($name, \@weights);
 Function: Creates a new Bio::NEXUS::WeightSet object
 Returns : Bio::NEXUS::WeightSet object
 Args    : none



    set_weights



 Title   : set_weights
 Usage   : $weight->set_weights(\@weights);
 Function: stores it in the list weights
 Returns : none
 Args    : list of weights



    get_weights



 Title   : get_weights
 Usage   : @wts=@{$weightset->get_weights()};
 Function: Returns the weights array
 Returns : reference to array containing weights
 Args    : none



    select_weights



 Title   : select_weights
 Usage   : $set->select_weights($columns);
 Function: select a subset of characters
 Returns : new self with subset of weights
 Args    : column numbers



    is_wt



 Title   : is_wt
 Usage   : croak unless $weight->is_wt();
 Function: Returns if object has weights (1 yes, 0 no)
 Returns : weight existence (integer)
 Args    : none



    set_name



 Title   : set_name
 Usage   : $weight->set_name($name);
 Function: Sets the name of the weightset
 Returns : none
 Args    : name (string)



    get_name



 Title   : get_name
 Usage   : $name=$weight->get_name();
 Function: Returns the name of the weightset
 Returns : name (string)
 Args    : none



    equals



 Name    : equals
 Usage   : $set->equals($another);
 Function: compare if two WeightSet objects are equal
 Returns : boolean
 Args    : an WeightSet object



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

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