/ 
bioperl-run-1.4
/ Bio::Tools::Run::PiseApplication::drawtree

NAME

Bio::Tools::Run::PiseApplication::drawtree

SYNOPSIS

#

DESCRIPTION

Bio::Tools::Run::PiseApplication::drawtree

      Bioperl class for:

	Phylip	drawtree - Plots an unrooted tree diagram (Felsenstein)

	References:

		Felsenstein, J.  1993.  PHYLIP (Phylogeny Inference Package) version 3.5c. Distributed by the author.  Department of Genetics, University of Washington, Seattle.

		Felsenstein, J.  1989.  PHYLIP -- Phylogeny Inference Package (Version 3.2). Cladistics  5: 164-166.



      Parameters: 

        (see also:
          http://bioweb.pasteur.fr/seqanal/interfaces/drawtree.html 
         for available values):


		drawtree (String)

		treefile (InFile)
			Tree File
			pipe: phylip_tree

		screen_type (String)

		plotter (Excl)
			Which plotter or printer will the tree be drawn on

		xxres (Float)
			X resolution

		xyres (Float)
			Y resolution

		laserjet_resolution (Excl)
			Laserjet resolution

		pcx_resolution (Excl)
			Paintbrush PCX resolution

		preview (String)

		branch_lengths (Switch)
			Use branch lengths

		angle (Excl)
			Angle of labels

		fixed_angle (Float)
			Fixed angle: Are the labels to be plotted vertically (90), horizontally (0), or downwards (-90)? 

		rotation (Float)
			Rotation of tree (in degrees from 360 to -360)

		arc (Float)
			Angle of arc for tree (in degrees from 0 to 360)

		iterate (Excl)
			Iterate to improve tree

		scale (Float)
			Scale of branch length (default: Automatically rescaled)

		horizontal_margins (Float)
			Horizontal margins

		vertical_margins (Float)
			Vertical margins

		character_height (Float)
			Relative character height

		font (String)
			Font (PostScript only)

		tops (String)

		topict (String)

		toxbm (String)

		confirm (String)

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/MailList.shtml  - About the mailing lists

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 email or the web:

bioperl-bugs@bioperl.org
http://bioperl.org/bioperl-bugs/

AUTHOR

Catherine Letondal (letondal@pasteur.fr)

COPYRIGHT

Copyright (C) 2003 Institut Pasteur & Catherine Letondal. All Rights Reserved.

This module is free software; you can redistribute it and/or modify it under the same terms as Perl itself.

DISCLAIMER

This software is provided "as is" without warranty of any kind.

SEE ALSO

  • http://bioweb.pasteur.fr/seqanal/interfaces/drawtree.html

  • Bio::Tools::Run::PiseApplication

  • Bio::Tools::Run::AnalysisFactory::Pise

  • Bio::Tools::Run::PiseJob

new

Title   : new()
Usage   : my $drawtree = Bio::Tools::Run::PiseApplication::drawtree->new($location, $email, @params);
Function: Creates a Bio::Tools::Run::PiseApplication::drawtree object.
          This method should not be used directly, but rather by 
          a Bio::Tools::Run::AnalysisFactory::Pise instance.
          my $factory = Bio::Tools::Run::AnalysisFactory::Pise->new();
          my $drawtree = $factory->program('drawtree');
Example : -
Returns : An instance of Bio::Tools::Run::PiseApplication::drawtree.