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package Ktree;
use strict;
use warnings;
use Carp;
sub new {
my $packagename = shift;
my $self = { _root => KtreeNode->new("", 0) };
bless ($self, $packagename);
return($self);
}
sub add_kmer {
my $self = shift;
my ($kmer) = @_;
unless (defined $kmer) {
confess "error, require param kmer";
}
my $root_node = $self->{_root};
my @seq = split(//, $kmer);
my $node = $root_node;
do {
my $char = shift @seq;
$node = $node->get_child($char);
} while (@seq);
$node->set_val( $node->get_val() + 1 );
return;
}
sub report_kmer_counts {
my $self = shift;
my $root_node = $self->{_root};
&_recurse_through_kmer_counts("", $root_node);
return;
}
sub _recurse_through_kmer_counts {
my ($prefix, $node) = @_;
my $char = $node->get_char();
my @children_chars = $node->get_children_chars();
if (@children_chars) {
foreach my $child_char (@children_chars) {
my $child_node = $node->get_child($child_char);
&_recurse_through_kmer_counts($prefix . $char, $child_node);
}
}
else {
# base case
my $val = $node->get_val();
print join("\t", $prefix . $char, $val) . "\n";
}
return;
}
package KtreeNode;
use strict;
use warnings;
use Carp;
sub new {
my $packagename = shift;
my ($char, $val) = @_;
unless (defined $char && defined $val) {
confess "Error, require (character, val) as parameter";
}
my $self = { char => $char,
val => $val,
children => {},
};
bless ($self, $packagename);
return($self);
}
####
sub get_child {
my $self = shift;
my ($char) = @_;
unless (defined $char) {
confess "error, parameter 'char' required";
}
my $child = $self->{children}->{$char};
unless (ref $child) {
$child = $self->{children}->{$char} = new KtreeNode($char, 0);
}
return($child);
}
sub get_children_chars {
my $self = shift;
my @chars = keys %{$self->{children}};
return(@chars);
}
sub get_char {
my $self = shift;
return($self->{char});
}
####
sub get_val {
my $self = shift;
return($self->{val});
}
####
sub set_val {
my $self = shift;
my $val = shift;
unless (defined $val) {
confess "error, require val as param";
}
$self->{val} = $val;
return;
}
1; #EOM
|
