Bio::Tools::Run::PiseApplication::cirdna # Bio::Tools::Run::PiseApplication::cirdna Bioperl class for: CIRDNA Draws circular maps of DNA constructs (EMBOSS) Parameters: (see also: http://bioweb.pasteur.fr/seqanal/interfaces/cirdna.html for available values): cirdna (String) init (String) graphout (Excl) graphout [device to be displayed on] (-graphout) inputfile (InFile) input file containing mapping data (-inputfile) ruler (Switch) do you want a ruler (-ruler) blocktype (Excl) type of blocks (-blocktype) originangle (Float) position of the molecule's origin on the circle (enter a number in the range 0 - 360) (-originangle) posticks (Excl) ticks inside or outside the circle (enter In or Out) (-posticks) posblocks (Excl) text inside or outside the blocks (enter In or Out) (-posblocks) intersymbol (Switch) do you want horizontal junctions between blocks (-intersymbol) intercolour (Integer) colour of junctions between blocks (enter a colour number) (-intercolour) interticks (Switch) do you want horizontal junctions between ticks (-interticks) gapsize (Integer) interval between ticks in the ruler (enter an integer) (-gapsize) ticklines (Switch) do you want vertical lines at the ruler's ticks (-ticklines) textheight (Float) height of text (enter a number to multiply the default height) (-textheight) textlength (Float) length of text (enter a number to multiply the default length) (-textlength) tickheight (Float) height of ticks (enter a number to multiply the default height) (-tickheight) blockheight (Float) height of blocks (enter a number to multiply the default height) (-blockheight) rangeheight (Float) height of range ends (enter a number to multiply the default height) (-rangeheight) gapgroup (Float) space between groups (enter a number to multiply the default space) (-gapgroup) postext (Float) space between text and ticks, blocks, and ranges (enter a number to multiply the default space) (-postext) auto (String) psouput (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/cirdna.html Bio::Tools::Run::PiseApplication Bio::Tools::Run::AnalysisFactory::Pise Bio::Tools::Run::PiseJob

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