Bio::Phenotype::Measure.3pm

Langue: en

Version: 2010-05-19 (ubuntu - 24/10/10)

Section: 3 (Bibliothèques de fonctions)

NAME

Bio::Phenotype::Measure - Representation of context/value(-range)/unit triplets

SYNOPSIS

   use Bio::Phenotype::Measure;
 
   my $measure = Bio::Phenotype::Measure->new( -context     => "length",
                                               -description => "reduced length in 4(Tas1r3)",
                                               -start       => 0,
                                               -end         => 15,
                                               -unit        => "mm",
                                               -comment     => "see also Miller et al" );
 
   print $measure->context();
   print $measure->description();
   print $measure->start();
   print $measure->end();
   print $measure->unit();
   print $measure->comment();
 
   print $measure->to_string();
 
 

DESCRIPTION

Measure is for biochemically defined phenotypes or any other types of measures.

FEEDBACK

Mailing Lists

User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to one of the Bioperl mailing lists. Your participation is much appreciated.
   bioperl-l@bioperl.org                  - General discussion
   http://bioperl.org/wiki/Mailing_lists  - About the mailing lists
 
 

Support

Please direct usage questions or support issues to the mailing list:

bioperl-l@bioperl.org

rather than to the module maintainer directly. Many experienced and reponsive experts will be able look at the problem and quickly address it. Please include a thorough description of the problem with code and data examples if at all possible.

Reporting Bugs

Report bugs to the Bioperl bug tracking system to help us keep track the bugs and their resolution. Bug reports can be submitted via the web:
   http://bugzilla.open-bio.org/
 
 

AUTHOR

Christian M. Zmasek

Email: czmasek-at-burnham.org or cmzmasek@yahoo.com

WWW: http://monochrome-effect.net/

Address:

   Genomics Institute of the Novartis Research Foundation
   10675 John Jay Hopkins Drive
   San Diego, CA 92121
 
 

APPENDIX

The rest of the documentation details each of the object methods.

new

  Title   : new
  Usage   : my $me = Bio::Phenotype::Measure->new( -context     => "length",
                                                   -description => "reduced length in 4(Tas1r3)",
                                                   -start       => 0,
                                                   -end         => 15,
                                                   -unit        => "mm",
                                                   -comment     => "see Miller also et al" );                      
  Function: Creates a new Measure object.
  Returns : A new Measure object.
  Args    : -context     => the context
            -description => a description
            -start       => the start value
            -end         => the end value
            -unit        => the unit
            -comment     => a comment
 
 

init

  Title   : init()
  Usage   : $measure->init();   
  Function: Initializes this Measure to all "".
  Returns : 
  Args    :
 
 

context

  Title   : context
  Usage   : $measure->context( "Ca-conc" );
            or 
            print $measure->context(); 
  Function: Set/get for the context of this Measure.
  Returns : The context.
  Args    : The context (optional).
 
 

description

  Title   : description
  Usage   : $measure->description( "reduced in 4(Tas1r3)" );
            or 
            print $measure->description(); 
  Function: Set/get for the description of this Measure.
  Returns : A description.
  Args    : A description (optional).
 
 

start

  Title   : start
  Usage   : $measure->start( 330 );
            or 
            print $measure->start(); 
  Function: Set/get for the start value of this Measure.
  Returns : The start value.
  Args    : The start value (optional).
 
 

end

  Title   : end 
  Usage   : $measure->end( 459 );
            or 
            print $measure->end(); 
  Function: Set/get for the end value of this Measure.
  Returns : The end value.
  Args    : The end value (optional).
 
 

unit

  Title   : unit
  Usage   : $measure->unit( "mM" );
            or 
            print $measure->unit(); 
  Function: Set/get for the unit of this Measure.
  Returns : The unit.
  Args    : The unit (optional).
 
 

comment

  Title   : comment
  Usage   : $measure->comment( "see also Miller et al" );
            or 
            print $measure->comment();
  Function: Set/get for an arbitrary comment about this Measure.
  Returns : A comment.
  Args    : A comment (optional).
 
 

to_string

  Title   : to_string()
  Usage   : print $measure->to_string();
  Function: To string method for Measure objects.
  Returns : A string representations of this Measure.
  Args    :