NAME

Bio::Gonzales::Phylo::Util - utility functions for phylogenetic analysis

SYNOPSIS

use Bio::Gonzales::Phylo::Util qw(leaf_mapper consensus_tree);

DESCRIPTION

SUBROUTINES

$map_iterator = leaf_mapper($code_ref // $pattern_or_map // '%s09d')

Example for a code reference:

my $map;
my $handler = sub {
    my ($id) = @_;
    
    return $map->{$id} // $id . '.NA';
};

my $map_iterator = leaf_mapper($handler);

my $mapped_tree = $map_iterator->($tree);

The iterator takes a Bio::Phylo::Forest::Tree object and remaps it. The mapping takes place directly on the tree, thus alters it.

consensus_tree($input_trees_file, $consensus_tree_file)

Parses the $input_tree_file, builds a consensus tree and writes it to $consensus_tree_file.

SEE ALSO

AUTHOR

jw bargsten, <joachim.bargsten at wur.nl>