Bio::Tools::Run::PiseApplication::distquart # Bio::Tools::Run::PiseApplication::distquart Bioperl class for: PHYLOQUART distquart - quartet inference by weak four-point method (NJ) (Berry) Parameters: (see also: http://bioweb.pasteur.fr/seqanal/interfaces/distquart.html for available values): distquart (String) dist (Switch) Reads as input inter-species distances (as opposed to sequences) (-d) infile (Sequence) Nucleotide Sequences Alignement File pipe: readseq_ok_alig gap (Switch) Use gap position whenever is possible for computing the distance between two taxa (-g) correct (Excl) Evolutionary model correction (-c) savedist (Switch) Save in the file outfile.dist the inter-species Hamming distances computed from the input nucleotide sequences (-s) distfile (InFile) Distances matrix File (lower triangular) pipe: phylip_dist lower (Switch) Lower triangular distances matrix (-l) outdistfile (OutFile) pipe: phylip_dist

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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/distquart.html Bio::Tools::Run::PiseApplication Bio::Tools::Run::AnalysisFactory::Pise Bio::Tools::Run::PiseJob

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