Provided by: libbio-perl-perl_1.7.2-3_all bug

NAME

       Module which implements a newick string parser as a finite state machine which enables it
       to parse the full Newick specification.

       Taken largely from the Ensembl Compara file with the same name
       (Bio::EnsEMBL::Compara::Graph::NewickParser), this module adapts the parser to work with
       BioPerl's event handler-based parsing scheme.

       This module is used by nhx.pm and newick.pm, and is NOT called directly. Instead, both of
       those parsing modules extend this module in order to gain access to the main parsing
       method.

SYNOPSIS

         # From newick.pm
         use base qw(Bio::TreeIO Bio::TreeIO::NewickParser);

         # in the next_tree method...
         $self->parse_newick($_);

DESCRIPTION

       This module correctly parses the Newick and NHX formats, sending calls to the BioPerl
       TreeEventHandler when appropriate in order to build and populate the node objects.

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

   Support
       Please direct usage questions or support issues to the mailing list:

       bioperl-l@bioperl.org

       rather than to the module maintainer directly. Many experienced and reponsive experts will
       be able look at the problem and quickly address it. Please include a thorough description
       of the problem with code and data examples if at all possible.

   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:

         https://github.com/bioperl/bioperl-live/issues

AUTHOR - Jessica Severin (EnsEMBL implementation), Greg Jordan (BioPerl adaptation)