Bio::TreeIO::svggraph.3pm

Langue: en

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

Section: 3 (Bibliothèques de fonctions)

NAME

Bio::TreeIO::svggraph - A simple output format that converts a Tree object to an SVG output

SYNOPSIS

   use Bio::TreeIO;
   my $in = Bio::TreeIO->new(-file => 'input', -format => 'newick');
   my $out = Bio::TreeIO->new(-file => '>output', -format => 'svggraph');
 
   while( my $tree = $in->next_tree ) {
       my $svg_xml = $out->write_tree($tree);
   }
 
 

DESCRIPTION

This outputs a tree as an SVG graphic using the SVG::Graph API

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 the Bioperl mailing list. 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 of the bugs and their resolution. Bug reports can be submitted via the web:
   http://bugzilla.open-bio.org/
 
 

AUTHOR - Brian OConnor

Email brian.oconnor-at-excite.com

CONTRIBUTORS

Allen Day Guillaume Rousse, Guillaume-dot-Rousse-at-inria-dot-fr

APPENDIX

The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _

new

  Title   : new
  Usage   : my $obj = Bio::TreeIO::svggraph->new();
  Function: Builds a new Bio::TreeIO::svggraph object 
  Returns : Bio::TreeIO::svggraph
  Args    :-width    => image width (default 1600)
           -height   => image height (default 1000)
           -margin   => margin (default 30)
           -stroke   => stroke color (default 'black')
           -stroke_width=> stroke width (default 2)
           -font_size=> font size (default '10px')
           -nomalize => undef or 'log' (default is undef)
 
 

write_tree

  Title   : write_tree
  Usage   : $treeio->write_tree($tree);
  Function: Write a tree out to data stream in newick/phylip format
  Returns : none
  Args    : Bio::Tree::TreeI object
 
 

decorateRoot

  Title   : _decorateRoot
  Usage   : internal methods
  Function:
  Example :
  Returns :
  Args    :
 
 

next_tree

  Title   : next_tree
  Usage   : 
  Function: Sorry not possible with this format
  Returns : none
  Args    : none