measures.hpp File Reference

Detailed Description

Header for Placement Measures functions.

Definition in file measures.hpp.

#include "genesis/placement/placement_tree.hpp"
#include <cstddef>
#include <utility>
#include <vector>

Go to the source code of this file.

Classes
class	Matrix< T >

Namespaces
	genesis
	Container namespace for all symbols of genesis in order to keep them separate when used as a library.
	genesis::placement
	genesis::utils

Functions
double	edpl (Pquery const &pquery, utils::Matrix< double > const &node_distances)
	Calculate the EDPL uncertainty values for a Pquery. More...
std::vector< double >	edpl (Sample const &sample)
	Calculate the expected distance between placement locations (EDPL) for all Pqueries in a Sample. More...
double	edpl (Sample const &sample, Pquery const &pquery)
	Calculate the EDPL uncertainty values for a Pquery. More...
std::vector< double >	edpl (Sample const &sample, utils::Matrix< double > const &node_distances)
	Calculate the edpl() for all Pqueries in the Sample. More...
double	pairwise_distance (const Sample &smp_a, const Sample &smp_b, bool with_pendant_length=false)
	Calculate the normalized pairwise distance between all placements of the two Samples. More...
double	variance (const Sample &smp, bool with_pendant_length=false)
	Calculate the variance of the placements on a tree. More...