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Bio::Tools::Run::PiseApplication::merger.3pm
Langue: en
Version: 2008-11-10 (debian - 07/07/09)
Section: 3 (Bibliothèques de fonctions)
Sommaire
NAME
Bio::Tools::Run::PiseApplication::mergerSYNOPSIS
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DESCRIPTION
Bio::Tools::Run::PiseApplication::mergerBioperl class for: MERGER Merge two overlapping nucleic acid sequences (EMBOSS) Parameters: (see also: http://bioweb.pasteur.fr/seqanal/interfaces/merger.html for available values): merger (String) init (String) seqa (Sequence) seqa -- DNA [single sequence] (-seqa) pipe: seqfile seqb (Sequence) seqb -- DNA [single sequence] (-seqb) datafile (Excl) Matrix file (-datafile) gapopen (Float) Gap opening penalty (-gapopen) gapextend (Float) Gap extension penalty (-gapextend) outseq (OutFile) outseq (-outseq) pipe: seqfile outseq_sformat (Excl) Output format for: outseq outfile (OutFile) Output alignment and explanation (-outfile) pipe: readseq_ok_alig outfile_aformat (Excl) Alignment output format (-aformat) auto (String)
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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
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- http://bioweb.pasteur.fr/seqanal/interfaces/merger.html
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- Bio::Tools::Run::PiseApplication
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- Bio::Tools::Run::AnalysisFactory::Pise
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- Bio::Tools::Run::PiseJob
new
Title : new() Usage : my $merger = Bio::Tools::Run::PiseApplication::merger->new($location, $email, @params); Function: Creates a Bio::Tools::Run::PiseApplication::merger 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 $merger = $factory->program('merger'); Example : - Returns : An instance of Bio::Tools::Run::PiseApplication::merger.
Contenus ©2006-2024 Benjamin Poulain
Design ©2006-2024 Maxime Vantorre