Bio::Tools::Run::PiseApplication::showfeat # Bio::Tools::Run::PiseApplication::showfeat Bioperl class for: SHOWFEAT Show features of a sequence. (EMBOSS) Parameters: (see also: http://bioweb.pasteur.fr/seqanal/interfaces/showfeat.html for available values): showfeat (String) init (String) sequence (Sequence) sequence -- any [sequences] (-sequence) pipe: seqsfile matchsource (String) Source of feature to display (-matchsource) matchtype (String) Type of feature to display (-matchtype) matchtag (String) Tag of feature to display (-matchtag) matchvalue (String) Value of feature tags to display (-matchvalue) sort (Excl) Sort features by Type, Start or Source, Nosort (don't sort - use input order) or join coding regions together and leave other features in the input order -- Sorting features (-sort) html (Switch) Use HTML formatting (-html) id (Switch) Show sequence ID (-id) description (Switch) Show description (-description) scale (Switch) Show scale line (-scale) width (Integer) Width of graphics lines (-width) collapse (Switch) Display features with the same type on one line (-collapse) forward (Switch) Display forward sense features (-forward) reverse (Switch) Display reverse sense features (-reverse) unknown (Switch) Display unknown sense features (-unknown) strand (Switch) Display strand of features (-strand) source (Switch) Display source of features (-source) position (Switch) Display position of features (-position) type (Switch) Display type of features (-type) tags (Switch) Display tags of features (-tags) values (Switch) Display tag values of features (-values) outfile (OutFile) Output feature details to a file (-outfile) auto (String)

Mailing Lists
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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.bioperl.org/ Catherine Letondal (letondal@pasteur.fr) 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. This software is provided "as is" without warranty of any kind. http://bioweb.pasteur.fr/seqanal/interfaces/showfeat.html Bio::Tools::Run::PiseApplication Bio::Tools::Run::AnalysisFactory::Pise Bio::Tools::Run::PiseJob

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