TTQuanti_continuous_single Class Reference

TTQuanti_continuous_single : simple implementation for a single quantitative trait with continuous allele values. More...

#include <ttquanti.h>

Inheritance diagram for TTQuanti_continuous_single:

Collaboration diagram for TTQuanti_continuous_single:

Public Member Functions
	TTQuanti_continuous_single ()
	TTQuanti_continuous_single (const TTQuanti_continuous_single &TT)
virtual	~TTQuanti_continuous_single ()
virtual void	init_sequence ()
virtual TTQuanti_continuous_single *	clone ()
virtual void	show_up ()
virtual double	get_additive_genotype (const unsigned int trait) const
virtual double	get_dominant_genotype (const unsigned int trait) const
virtual void	copy_sequence_block (sex_t SEX, unsigned int strand, unsigned int from_locus, unsigned int to_locus, const TTQuanti *parent)
virtual void	copy_sequence_1locus (sex_t SEX, unsigned int strand, unsigned int at, const TTQuanti *parent)
Public Member Functions inherited from TTQuanti_continuous
	TTQuanti_continuous ()
	TTQuanti_continuous (const TTQuanti &T)
virtual	~TTQuanti_continuous ()
virtual void	reset ()
virtual void	init ()
virtual void	set_sequence (void **seq)
virtual void **	get_sequence () const
virtual double	get_allele_value (int loc, int all) const
virtual void	set_allele_value (unsigned int locus, unsigned int allele, double value)
virtual TTQuanti_continuous &	operator= (const TTrait &T)
virtual bool	operator== (const TTrait &T)
virtual bool	operator!= (const TTrait &T)
virtual void	store_data (BinaryStorageBuffer *saver)
virtual bool	retrieve_data (BinaryStorageBuffer *reader)
virtual double	get_full_genotype (unsigned int trait)
virtual void	set_allele (int locus, int allele, double value)
virtual void	mutate_add (unsigned int position, unsigned int allele, double value)
virtual void	mutate_inplace (unsigned int position, unsigned int allele, double value)
virtual bool	get_allele_bit (unsigned int position, unsigned int allele) const
virtual void	set_allele_bit (unsigned int position, unsigned int allele, bool value)
Public Member Functions inherited from TTQuanti
	TTQuanti ()
	TTQuanti (const TTQuanti &T)
virtual	~TTQuanti ()
virtual trait_t	get_type () const
virtual void	mutate ()
virtual void	inherit (const TTrait *mother, const TTrait *father)
virtual void *	set_trait (void *value)
virtual void	set_value ()
virtual void *	getValue () const
void	set_proto (TProtoQuanti *proto)
TProtoQuanti *	get_proto ()
double	get_phenotype (unsigned int trai)
void	set_phenotype (unsigned int trait, double value)
Public Member Functions inherited from TTrait
virtual	~TTrait ()
Public Member Functions inherited from StorableComponent
virtual	~StorableComponent ()

Additional Inherited Members
Protected Attributes inherited from TTQuanti_continuous
double **	_sequence
Protected Attributes inherited from TTQuanti
double *	_phenotypes
TProtoQuanti *	_myProto

Detailed Description

TTQuanti_continuous_single : simple implementation for a single quantitative trait with continuous allele values.

Constructor & Destructor Documentation

TTQuanti_continuous_single() [1/2]

TTQuanti_continuous_single::TTQuanti_continuous_single ( )

inline

: TTQuanti_continuous() {}

Referenced by clone().

TTQuanti_continuous_single() [2/2]

TTQuanti_continuous_single::TTQuanti_continuous_single ( const TTQuanti_continuous_single &  TT )

inline

: TTQuanti_continuous(TT) {}

~TTQuanti_continuous_single()

virtual TTQuanti_continuous_single::~TTQuanti_continuous_single ( )

inlinevirtual

{}

Member Function Documentation

clone()

virtual TTQuanti_continuous_single* TTQuanti_continuous_single::clone ( )

inlinevirtual

Implements TTrait.

{return new TTQuanti_continuous_single(*this);}

References TTQuanti_continuous_single().

copy_sequence_1locus()

virtual void TTQuanti_continuous_single::copy_sequence_1locus ( sex_t  SEX, unsigned int  strand, unsigned int  at, const TTQuanti *  parent  )

virtual

Implements TTQuanti.

copy_sequence_block()

virtual void TTQuanti_continuous_single::copy_sequence_block ( sex_t  SEX, unsigned int  strand, unsigned int  from_locus, unsigned int  to_locus, const TTQuanti *  parent  )

virtual

Implements TTQuanti.

get_additive_genotype()

double TTQuanti_continuous_single::get_additive_genotype ( const unsigned int  trait ) const

inlinevirtual

Implements TTQuanti.

{
  double genotype = 0;
 
  for(unsigned int j = 0; j < _myProto->get_num_locus(); ++j) {
    genotype += _sequence[0][j] + _sequence[1][j];
  }
 
  return genotype;
}

References TTQuanti::_myProto, TTQuanti_continuous::_sequence, and TProtoQuanti::get_num_locus().

get_dominant_genotype()

double TTQuanti_continuous_single::get_dominant_genotype ( const unsigned int  trait ) const

virtual

Implements TTQuanti.

{
  double genotype = 0;
 
  for(unsigned int j = 0; j < _myProto->get_num_locus(); ++j) {
    genotype += _myProto->get_genotype_with_dominance( _sequence[0][j],  _sequence[1][j], j, trait);
  }
 
  return genotype;
}

References TTQuanti::_myProto, TTQuanti_continuous::_sequence, TProtoQuanti::get_genotype_with_dominance(), and TProtoQuanti::get_num_locus().

init_sequence()

virtual void TTQuanti_continuous_single::init_sequence ( )

virtual

Implements TTrait.

show_up()

virtual void TTQuanti_continuous_single::show_up ( )

virtual

Implements TTrait.

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

• ttquanti.h
• ttquanti.cc