viterbi_parameters Class Reference

#include <viterbi.h>

Public Types
using	NodeFamilyKey = std::pair< int, pCafeFamilyItem >

Public Member Functions
void	set_node_familysize (pCafeTree tree, pCafeFamilyItem pItem)
void	compute_size_deltas (pTree ptree, pCafeFamilyItem pitem)
void	clear (int nnodes)

Data Fields
int	num_nodes
int	num_rows
std::vector< change >	expandRemainDecrease
std::map< NodeFamilyKey, int >	viterbiNodeFamilysizes
std::map< NodeFamilyKey, double >	viterbiPvalues
double *	maximumPvalues
std::vector< double >	averageExpansion
double **	cutPvalues

Member Typedef Documentation

using viterbi_parameters::NodeFamilyKey = std::pair<int, pCafeFamilyItem>

Member Function Documentation

void viterbi_parameters::clear

(

int

nnodes

)

void viterbi_parameters::compute_size_deltas	(	pTree	ptree,
		pCafeFamilyItem	pitem
	)

void viterbi_parameters::set_node_familysize	(	pCafeTree	tree,
		pCafeFamilyItem	pItem
	)

Field Documentation

std::vector<double> viterbi_parameters::averageExpansion

double** viterbi_parameters::cutPvalues

std::vector<change> viterbi_parameters::expandRemainDecrease

array of three integers expand, remain, and decrease for each node in the tree relative to its parent

double* viterbi_parameters::maximumPvalues

int viterbi_parameters::num_nodes

Number of nodes in the tree

int viterbi_parameters::num_rows

Number of gene families for which to keep data

std::map<NodeFamilyKey, int> viterbi_parameters::viterbiNodeFamilysizes

std::map<NodeFamilyKey, double> viterbi_parameters::viterbiPvalues

Matrix of calculated P values for each node in the tree and each gene family

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The documentation for this class was generated from the following files:

• /mnt/c/Users/befulton/Documents/GIT/CAFE/cafe/viterbi.h
• /mnt/c/Users/befulton/Documents/GIT/CAFE/cafe/viterbi.cpp