Binary hypercube_lowd used in low-dimensional simulations. More...

#include <ffpopsim_lowd.h>

Public Member Functions
	hypercube_lowd ()

	hypercube_lowd (int dim_in, int s=0)

	~hypercube_lowd ()

int	set_up (int dim_in, int s=0)

int	gaussian_coefficients (double *vark, bool add=false)

int	additive (double *additive_effects, bool add=false)

int	init_rand_gauss (double sigma, bool add=false)

int	init_list (vector< index_value_pair_t > iv, bool add=false)

int	init_coeff_list (vector< index_value_pair_t > iv, bool add=false)

void	calc_order ()

void	set_state (int s)

int	read_coeff (istream &in)

int	write_func (ostream &out)

int	write_coeff (ostream &in, bool label=false)

int	read_func (istream &out)

int	read_func_labeled (istream &in)

int	signature (int point)

int	fft_func_to_coeff ()

int	fft_coeff_to_func ()

int	get_state ()

unsigned int	get_dim ()

unsigned int	get_seed ()

double	get_func (int point)

double	get_coeff (int point)

int	argmax ()

double	valuemax ()

void	func_set (int point, double f)

void	func_increment (int point, double f)

int	normalize (double targetnorm=1.0)

int	reset ()

int	scale (double scale)

int	shift (double shift)

int	test ()

Public Attributes
int	dim

int	state

double *	coeff

double *	func

int *	order

Protected Attributes
gsl_rng *	rng

unsigned int	seed

Detailed Description

Binary hypercube_lowd used in low-dimensional simulations.

This class is a generic object that can be used to represent various things, e.g.

the fitness landscape or any other phenotypic landscape;
the genotype frequencies of a population with a genome of size L.

If you are planning to model a whole population evolving on the hypercube_lowd, see the class haploid_lowd.

Notes on scalability:

The number of genotypes to store increases as \(2^L\), where L is the number of sites
The number of recombination intermediates to be stored increases as \(3^L\), this class can thus only be used for \(L\) up to 20 or so.
The population size N is actually unimportant, as far as it can be stored as a long integer. In other words, this class scales with N like O(1).

Constructor & Destructor Documentation

hypercube_lowd::hypercube_lowd ( )

hypercube_lowd::hypercube_lowd	(	int	dim_in,
		int	s = `0`
	)

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hypercube_lowd::~hypercube_lowd ( )

Member Function Documentation

int hypercube_lowd::additive	(	double *	additive_effects,
		bool	add = `false`
	)

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int hypercube_lowd::argmax ( )

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void hypercube_lowd::calc_order ( )

int hypercube_lowd::fft_coeff_to_func ( )

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int hypercube_lowd::fft_func_to_coeff ( )

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void hypercube_lowd::func_increment	(	int	point,
		double	f
	)

inline

void hypercube_lowd::func_set	(	int	point,
		double	f
	)

inline

int hypercube_lowd::gaussian_coefficients	(	double *	vark,
		bool	add = `false`
	)

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double hypercube_lowd::get_coeff ( int point )

inline

unsigned int hypercube_lowd::get_dim ( )

inline

double hypercube_lowd::get_func ( int point )

inline

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unsigned int hypercube_lowd::get_seed ( )

inline

int hypercube_lowd::get_state ( )

inline

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int hypercube_lowd::init_coeff_list	(	vector< index_value_pair_t >	iv,
		bool	add = `false`
	)

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int hypercube_lowd::init_list	(	vector< index_value_pair_t >	iv,
		bool	add = `false`
	)

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int hypercube_lowd::init_rand_gauss	(	double	sigma,
		bool	add = `false`
	)

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int hypercube_lowd::normalize ( double targetnorm = 1.0 )

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int hypercube_lowd::read_coeff ( istream & in )

int hypercube_lowd::read_func ( istream & out )

int hypercube_lowd::read_func_labeled ( istream & in )

int hypercube_lowd::reset ( )

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int hypercube_lowd::scale ( double scale )

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void hypercube_lowd::set_state ( int s )

inline

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int hypercube_lowd::set_up	(	int	dim_in,
		int	s = `0`
	)

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int hypercube_lowd::shift ( double shift )

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int hypercube_lowd::signature ( int point )

int hypercube_lowd::test ( )

double hypercube_lowd::valuemax ( )

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int hypercube_lowd::write_coeff	(	ostream &	in,
		bool	label = `false`
	)

int hypercube_lowd::write_func ( ostream & out )

Member Data Documentation

double* hypercube_lowd::coeff

int hypercube_lowd::dim

double* hypercube_lowd::func

int* hypercube_lowd::order

gsl_rng* hypercube_lowd::rng

protected

unsigned int hypercube_lowd::seed

protected

int hypercube_lowd::state

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

src/ffpopsim_lowd.h
src/hypercube_lowd.cpp

Public Member Functions

Public Attributes

Protected Attributes

Detailed Description

Constructor & Destructor Documentation

Member Function Documentation

Member Data Documentation