epca.hpp File Reference

#include "genesis/placement/placement_tree.hpp"
#include "genesis/utils/containers/matrix.hpp"
#include <vector>

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Classes
struct	EpcaData
	Helper stucture that collects the output of epca(). More...

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

Functions
EpcaData	epca (SampleSet const &samples, double kappa=1.0, double epsilon=1e-5, size_t components=0)
	Perform EdgePCA on a SampleSet. More...
utils::Matrix< double >	epca_imbalance_matrix (SampleSet const &samples, bool include_leaves=false, bool normalize=true)
	Calculate the imbalance matrix of placment mass for all Samples in a SampleSet. More...
std::vector< double >	epca_imbalance_vector (Sample const &sample, bool normalize=true)
	Calculate the imbalance of placement mass for each Edge of the given Sample. More...
void	epca_splitify_transform (utils::Matrix< double > &imbalance_matrix, double kappa=1.0)
	Perform a component-wise transformation of the imbalance matrix used for epca(). More...