NAME

Bio::Tools::Run::PiseApplication::seqmatchall

SYNOPSIS

#

DESCRIPTION

Bio::Tools::Run::PiseApplication::seqmatchall

      Bioperl class for:

	SEQMATCHALL	Does an all-against-all comparison of a set of sequences (EMBOSS)


      Parameters: 

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


		seqmatchall (String)

		init (String)

		sequence (Sequence)
			sequence -- any [set of sequences] (-sequence)
			pipe: seqsfile

		wordsize (Integer)
			Word size (-wordsize)

		outfile (OutFile)
			outfile (-outfile)

		auto (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/wiki/Mailing_lists  - 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 the web:

http://bugzilla.open-bio.org/

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/seqmatchall.html

• Bio::Tools::Run::PiseApplication

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

• Bio::Tools::Run::PiseJob

new

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