| Bio::TreeIO::cluster(3pm) | User Contributed Perl Documentation | Bio::TreeIO::cluster(3pm) |
Bio::TreeIO::cluster - A TreeIO driver module for parsing Algorithm::Cluster::treecluster() output
# do not use this module directly
use Bio::TreeIO;
use Algorithm::Cluster;
my ($result, $linkdist) = Algorithm::Cluster::treecluster(
distances => $matrix
);
my $treeio = Bio::TreeIO->new(
-format => 'cluster',
-result => $result,
-linkdist => $linkdist,
-labels => $labels
);
my $tree = $treeio->next_tree;
This is a driver module for parsing Algorithm::Cluster::treecluster() output.
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
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.
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
Email Guillaume-dot-Rousse-at-inria-dot-fr
Jason Stajich - jason-at-bioperl-dot-org
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
Title : new
Usage : my $obj = Bio::TreeIO::cluster->new();
Function: Builds a new Bio::TreeIO::cluster object for reading Algorithm::Cluster::treecluster output
Returns : Bio::TreeIO::cluster
Args :-result => Algorithm::Cluster result
-linkdist => distance between links
-labels => node labels
Title : next_tree Usage : my $tree = $treeio->next_tree Function: Gets the next tree in the stream Returns : Bio::Tree::TreeI Args : none
Title : write_tree Usage : Function: Sorry not possible with this format Returns : none Args : none
| 2018-10-27 | perl v5.26.2 |