There are various modules on CPAN that will help you a great deal.
With Tree::DAG_Node for instance you can traverse the tree, running methods or simply and safely pruning and splicing the leaves and branches of your tree as you go along.
Untested...
my @leaves = ();
$root->walk_down('callback' =>
sub {
if (!scalar($_[0]->daughters)) # is it a leaf?
push @leaves, $_[0];
return 1;
}
$root->add_daughters(@leaves);
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