masses.cpp File Reference

Detailed Description

Implementation of the Placement Functions.

Definition in file masses.cpp.

#include "genesis/placement/function/masses.hpp"
#include "genesis/placement/function/helper.hpp"
#include "genesis/placement/function/operators.hpp"
#include "genesis/tree/common_tree/distances.hpp"
#include "genesis/tree/common_tree/functions.hpp"
#include "genesis/tree/function/distances.hpp"
#include "genesis/tree/function/functions.hpp"
#include "genesis/tree/function/operators.hpp"
#include "genesis/utils/core/algorithm.hpp"
#include "genesis/utils/core/std.hpp"
#include <algorithm>
#include <cassert>
#include <cmath>
#include <exception>
#include <regex>
#include <string>
#include <unordered_map>
#include <unordered_set>
#include <vector>

Go to the source code of this file.

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

Functions
std::vector< double >	placement_mass_per_edge_without_multiplicities (Sample const &sample)
	Return a vector that contains the sum of the masses of the PqueryPlacements per edge of the tree of the Sample. More...
utils::Matrix< double >	placement_mass_per_edge_without_multiplicities (SampleSet const &sample_set)
	Return a Matrix that contains the placement masses per edge. More...
std::vector< double >	placement_mass_per_edges_with_multiplicities (Sample const &sample)
	Return a vector that contains the sum of the masses of the PqueryPlacements per edge of the tree of the Sample, using the multiplicities as factors. More...
utils::Matrix< double >	placement_mass_per_edges_with_multiplicities (SampleSet const &sample_set)
	Return a Matrix that contains the placement masses per edge, using the multiplicities as factors. More...
double	total_multiplicity (Pquery const &pqry)
	Return the sum of all multiplicities of the Pquery. More...
double	total_multiplicity (Sample const &sample)
	Return the sum of all multiplicities of all the Pqueries of the Sample. More...
double	total_placement_mass_with_multiplicities (Sample const &smp)
	Get the mass of all PqueryPlacements of the Sample, using the multiplicities as factors. More...
double	total_placement_mass_without_multiplicities (Sample const &smp)
	Get the summed mass of all PqueryPlacements in all Pqueries of the given Sample, where mass is measured by the like_weight_ratios of the PqueryPlacements. More...