stochMath.h File Reference

#include <math.h>
#include <iostream>
#include <vector>
#include <limits>
#include <stdint.h>
#include <algorithm>

Go to the source code of this file.

Namespaces
namespace	StochHMM
	traceback_path.h

Macros
#define	SIZE_MAX   ((size_t)-1)
#define	UINT16_MAX   65535
#define	PI   3.145926535897932

Functions
template<typename T >
T	StochHMM::integerPower (T base, T exponent)
template<typename T >
T	StochHMM::addLog (T first, T second)
template<typename T >
void	StochHMM::addVectorCombinatorial (std::vector< T > &result, std::vector< T > &lhs, std::vector< T > &rhs)
template<typename T >
void	StochHMM::multiplyVectorCombinatorial (std::vector< T > &result, std::vector< T > &lhs, std::vector< T > &rhs)
template<typename T >
void	StochHMM::addValueToVector (std::vector< T > &vec, T value)
template<typename T >
void	StochHMM::multiplyValueToVector (std::vector< T > &vec, T value)
template<typename T >
void	StochHMM::divideValueToVector (std::vector< T > &vec, T value)
void	StochHMM::generateUnknownIndices (std::vector< size_t > &results, size_t alphabetSize, size_t order, size_t value)
template<class T >
T	StochHMM::sumVector (std::vector< T > &data)
	Sum the vector and return the sum.
template<class T >
T	StochHMM::sumVector (const std::vector< T > &data)
template<class T >
T	StochHMM::productVector (std::vector< T > &data)
	Multiply terms in vector and return the product.
template<typename T >
T	StochHMM::minVector (std::vector< T > &data)
template<typename T >
T	StochHMM::maxVector (std::vector< T > &data)
template<typename T >
T	StochHMM::avgVector (std::vector< T > &data)
template<typename T >
void	StochHMM::logVector (std::vector< T > &data)
template<typename T >
void	StochHMM::expVector (std::vector< T > &data)
template<typename T >
T	StochHMM::avgLogVector (std::vector< T > &data)
template<typename T >
void	StochHMM::probVector (std::vector< T > &data)
template<typename T >
void	StochHMM::addVector (std::vector< T > &lhs, std::vector< T > &rhs)
template<typename T >
void	StochHMM::logProbVector (std::vector< T > &data)
double	StochHMM::interpolate (std::pair< double, double > &a, std::pair< double, double > &b, double &cx)
	Interpolates the y value given cx and two surrounding points on either side a and b.
double	StochHMM::extrapolate (std::pair< double, double > &a, std::pair< double, double > &b, double &cx)
	Extrapolates the Y value of point given by cx and two previous points.
template<class T >
T	StochHMM::min (std::vector< T > &set)
template<class T >
T	StochHMM::max (std::vector< T > &set)
template<class T >
T	StochHMM::construct_histogram (std::vector< T > &set, int N_bins)
template<class T >
T	StochHMM::smooth_histogram (std::vector< T > histo, int intervals, int window_size, int iterations)
float	StochHMM::entropy (std::vector< float > &set)
	Shannon's Entropy in log(2) space.
double	StochHMM::entropy (std::vector< double > &set)
float	StochHMM::rel_entropy (std::vector< float > &set, std::vector< float > &set2)
double	StochHMM::rel_entropy (std::vector< double > &set, std::vector< double > &set2)
double	StochHMM::_integrate (double(*funct)(double, std::vector< double > &), double upper, double lower, std::vector< double > &param)
double	StochHMM::integrate (double(*funct)(double, std::vector< double > &), double lower, double upper, std::vector< double > &param, double max_error=0.000001, double sum=0)
double	StochHMM::simpson (double(*funct)(double, std::vector< double > &), double alpha, double beta, double lower, double upper)
double	StochHMM::adapt_simpson (double(*funct)(double, double, double), double alpha, double beta, double lower, double upper, double max_error, double sum)
double	StochHMM::summation (double(*funct)(int, std::vector< double > &), int, int, std::vector< double > &)
double	StochHMM::igamma_upper (double s, double x)
double	StochHMM::igamma_lower (double a, double x)
	http://wwwC/.rskey.org/CMS/index.php/the-library/11
double	StochHMM::_igamma_lower (double, std::vector< double > &)
double	StochHMM::rgammap (double s, double x)
double	StochHMM::rgammaq (double s, double x)
double	StochHMM::beta (double a, double b)
double	StochHMM::ibeta (double x, double a, double b)
float	StochHMM::betaPDF (float x, float a, float b)
double	StochHMM::_ibeta (double, std::vector< double > &)
double	StochHMM::ribeta (double x, double a, double b)
double	StochHMM::factorial (double x)
double	StochHMM::bin_coef (double n, double r)
float	StochHMM::bin_coef (int n, int k)
double	StochHMM::logit (double x)

Variables
const uint32_t	StochHMM::POWER [32][128]

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Macro Definition Documentation

#define PI   3.145926535897932

Definition at line 49 of file stochMath.h.

#define SIZE_MAX   ((size_t)-1)

Definition at line 39 of file stochMath.h.

#define UINT16_MAX   65535

Definition at line 43 of file stochMath.h.

Referenced by StochHMM::stochTable::get_state_position(), StochHMM::stochTable::traceback(), and StochHMM::alt_simple_stochTable::traceback().