Bio::Align::StatisticsI.3pm

Langue: en

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

Section: 3 (Bibliothèques de fonctions)

NAME

Bio::Align::StatisticsI - Calculate some statistics for an alignment

SYNOPSIS

Give standard usage here

DESCRIPTION

Describe the interface here

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 - Jason Stajich

Email jason@bioperl.org

APPENDIX

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

distance

  Title   : distance
  Usage   : my $distance_mat = $stats->distance(-align  => $aln, 
                                                -method => $method);
  Function: Calculates a distance matrix for all pairwise distances of
            sequences in an alignment.
  Returns : Array ref
  Args    : -align  => Bio::Align::AlignI object
            -method => String specifying specific distance method 
                       (implementing class may assume a default)
 
 

available_distance_methods

  Title   : available_distance_methods
  Usage   : my @methods = $stats->available_distance_methods();
  Function: Enumerates the possible distance methods
  Returns : Array of strings
  Args    : none