| Bio::PhyloNetwork::GraphViz(3pm) | User Contributed Perl Documentation | Bio::PhyloNetwork::GraphViz(3pm) |
Bio::PhyloNetwork::GraphViz - Interface between PhyloNetwork and GraphViz
use Bio::PhyloNetwork;
use Bio::PhyloNetwork::GraphViz;
my $net=Bio::PhyloNetwork->new(
-eNewick=>'((H1,(H1,(H2,l))),H2)t0; (some long label)H1; ("quoted label")H2;'
);
my $gv=Bio::PhyloNetwork::GraphViz->new(-net=>$net,-short_labels=>1);
foreach my $u ($net->nodes()) {
print "$u:".$gv->nodePN_to_nodeGV->{$u}."\n";
}
print $gv->as_text;
open my $PS, '>', "net.ps" or die "Could not write file 'net.ps': $!\n";
print $PS $gv->as_ps;
close $PS;
This is a module to create GraphViz objects representing phylogenetic networks.
Gabriel Cardona, gabriel(dot)cardona(at)uib(dot)es
Bio::PhyloNetwork, GraphViz
The rest of the documentation details each of the object methods.
Title : new
Usage : my $graphv = new Bio::PhyloNetwork::GraphViz();
Function: Creates a new Bio::PhyloNetwork::GraphViz object
Returns : Bio::PhyloNetwork::GraphViz
Args : -net => Bio::PhyloNetwork object
-short_labels => boolean (optional)
Returns a Bio::PhyloNetwork::GraphViz object, which is an extension of a GraphViz object. The GraphViz object is a representation of the phylogenetic network given. The extra information the created object holds is a hash table with keys the nodes of the PhyloNetwork object and values the nodes of the GraphViz object. If the optional argument -short_labels=>1 is given, the labels of the nodes in GraphViz are shortened to a maximum of 3 letters.
Title : nodePN_to_nodeGV
Usage : my $hashR=$graphv->nodePN_to_nodeGV()
Function: returns (a reference to) a hash holding the translation between
nodes of the Bio::PhyloNetwork object and nodes of the GraphViz
object
Returns : reference to hash
Args : none
| 2018-10-27 | perl v5.26.2 |