Bio::Tools::Run::PiseApplication::seqboot(3)

NAME
Bio::Tools::Run::PiseApplication::seqboot

SYNOPSIS
  #

DESCRIPTION
Bio::Tools::Run::PiseApplication::seqboot

      Bioperl class for:

        Phylip  seqboot - Bootstrap, Jackknife, or Permutation Resampling (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/seqboot.html
         for available values):

                seqboot (String)

                infile (InFile)
                        Alignement File

                data_type (Excl)
                        Data type (D)

                method (Excl)
                        Resampling methods (J)

                seed (Integer)
                        Random number seed (must be odd)

                replicates (Integer)
                        How many replicates (R)

                alleles (Switch)
                        All alleles present at each locus (default: no, one absent at each locus) (A)

                enzymes_nb (Switch)
                        Number of enzymes: not present in input file (E)

                confirm (String)

                terminal_type (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/seqboot.html

•   Bio::Tools::Run::PiseApplication

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

•   Bio::Tools::Run::PiseJob

  new
 Title   : new()
 Usage   : my $seqboot = Bio::Tools::Run::PiseApplication::seqboot->new($location, $email, @params);
 Function: Creates a Bio::Tools::Run::PiseApplication::seqboot 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 $seqboot = $factory->program('seqboot');
 Example : -
 Returns : An instance of Bio::Tools::Run::PiseApplication::seqboot.