sample_set.cpp File Reference

#include "genesis/placement/function/sample_set.hpp"
#include "genesis/placement/function/functions.hpp"
#include "genesis/placement/function/operators.hpp"
#include "genesis/tree/common_tree/functions.hpp"
#include "genesis/tree/function/tree_set.hpp"
#include "genesis/tree/tree_set.hpp"
#include <ostream>

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

Functions
void	adjust_branch_lengths (SampleSet &sample_set, tree::Tree const &source)
	Take the branch lengths of the source Tree and use them as the new branch lengths of the Samples in the sample_set. More...
void	adjust_to_average_branch_lengths (SampleSet &sample_set)
	Set the branch lengths of all Samples in the sample_set to the respecitve average branch length of the Samples. More...
bool	all_identical_trees (SampleSet const &sample_set)
	Returns true iff all Trees of the Samples in the set are identical. More...
tree::Tree	average_branch_length_tree (SampleSet const &sample_set)
	Return the Tree that has edges with the average branch length of the respective edges of the Trees in the Samples of the given SampleSet. More...
Sample *	find_sample (SampleSet &sample_set, std::string const &name)
	Get the first Sample in a SampleSet that has a given name, or nullptr if not found. More...
Sample const *	find_sample (SampleSet const &sample_set, std::string const &name)
	Get the first Sample in a SampleSet that has a given name, or nullptr if not found. More...
Sample	merge_all (SampleSet const &sample_set)
	Returns a Sample where all Samples of a SampleSet have been merged into. More...
std::ostream &	operator<< (std::ostream &out, SampleSet const &sample_set)
size_t	total_pquery_count (SampleSet const &sample_set)
	Return the total number of Pqueries in the Samples of the SampleSet. More...
tree::TreeSet	tree_set (SampleSet const &sample_set)
	Return a TreeSet containing all the trees of the SampleSet. More...