CPositionalPWM Class Reference

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Detailed Description

Positional PWM.

Definition at line 22 of file PositionalPWM.h.

Inheritance diagram for CPositionalPWM:

List of all members.

Public Member Functions
	CPositionalPWM ()
virtual	~CPositionalPWM ()
virtual bool	train (CFeatures *data=NULL)
virtual int32_t	get_num_model_parameters ()
virtual float64_t	get_log_model_parameter (int32_t num_param)
virtual float64_t	get_log_derivative (int32_t num_param, int32_t num_example)
virtual float64_t	get_log_likelihood_example (int32_t num_example)
float64_t	get_log_likelihood_window (uint8_t *window, int32_t len, float64_t pos)
virtual float64_t	get_sigma ()
virtual void	set_sigma (float64_t sigma)
virtual float64_t	get_mean ()
virtual void	set_mean (float64_t mean)
virtual void	set_pwm (SGMatrix< float64_t > pwm)
virtual SGMatrix< float64_t >	get_pwm ()
virtual SGMatrix< float64_t >	get_w ()
virtual SGMatrix< float64_t >	get_scoring (int32_t d)
void	compute_w (int32_t num_pos)
void	compute_scoring (int32_t max_degree)
virtual const char *	get_name () const
Protected Attributes
int32_t	m_pwm_rows
int32_t	m_pwm_cols
float64_t *	m_pwm
float64_t	m_sigma
float64_t	m_mean
int32_t	m_w_rows
int32_t	m_w_cols
float64_t *	m_w
int32_t	m_poim_len
float64_t *	m_poim

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Constructor & Destructor Documentation

CPositionalPWM

(

)

default constructor

Definition at line 18 of file PositionalPWM.cpp.

~CPositionalPWM

(

)

[virtual]

Definition at line 27 of file PositionalPWM.cpp.

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Member Function Documentation

void compute_scoring

(

int32_t

max_degree

)

compute scoring

Parameters:

max_degree

Definition at line 141 of file PositionalPWM.cpp.

void compute_w

(

int32_t

num_pos

)

compute w

Parameters:

num_pos

Definition at line 101 of file PositionalPWM.cpp.

float64_t get_log_derivative	(	int32_t	num_param,
		int32_t	num_example
	)			[virtual]

get partial derivative of likelihood function (logarithmic)

Parameters:

	num_param	derivative against which param
	num_example	which example

Returns:

derivative of likelihood (logarithmic)

Implements CDistribution.

Definition at line 59 of file PositionalPWM.cpp.

float64_t get_log_likelihood_example

(

int32_t

num_example

)

[virtual]

compute log likelihood for example

abstract base method

Parameters:

num_example

which example

Returns:

log likelihood for example

Implements CDistribution.

Definition at line 65 of file PositionalPWM.cpp.

float64_t get_log_likelihood_window	(	uint8_t *	window,
		int32_t	len,
		float64_t	pos
	)

get log likelihood window

Parameters:

	window
	len
	pos

Definition at line 89 of file PositionalPWM.cpp.

float64_t get_log_model_parameter

(

int32_t

num_param

)

[virtual]

get model parameter (logarithmic)

Returns:

model parameter (logarithmic) if num_param < m_dim returns an element from the mean, else return an element from the covariance

Implements CDistribution.

Definition at line 44 of file PositionalPWM.cpp.

virtual float64_t get_mean

(

)

[virtual]

get mean

Definition at line 94 of file PositionalPWM.h.

virtual const char* get_name

(

)

const [virtual]

Returns:

object name

Implements CSGObject.

Definition at line 156 of file PositionalPWM.h.

int32_t get_num_model_parameters

(

)

[virtual]

get number of parameters in model

Returns:

number of parameters in model

Implements CDistribution.

Definition at line 39 of file PositionalPWM.cpp.

virtual SGMatrix<float64_t> get_pwm

(

)

[virtual]

get pwm

Returns:

current pwm

Definition at line 123 of file PositionalPWM.h.

SGMatrix< float64_t > get_scoring

(

int32_t

d

)

[virtual]

get poim u

Parameters:

d

degree for which poim should be obtained

Returns:

poim u

Definition at line 225 of file PositionalPWM.cpp.

virtual float64_t get_sigma

(

)

[virtual]

get sigma

Definition at line 78 of file PositionalPWM.h.

virtual SGMatrix<float64_t> get_w

(

)

[virtual]

get w

Returns:

current w

Definition at line 132 of file PositionalPWM.h.

virtual void set_mean

(

float64_t

mean

)

[virtual]

set mean

Parameters:

mean

new mean

Definition at line 103 of file PositionalPWM.h.

virtual void set_pwm

(

SGMatrix< float64_t >

pwm

)

[virtual]

set pwm

Parameters:

pwm

new pwm (values must be in logspace)

Definition at line 112 of file PositionalPWM.h.

virtual void set_sigma

(

float64_t

sigma

)

[virtual]

set sigma

Parameters:

sigma

new sigma

Definition at line 87 of file PositionalPWM.h.

bool train

(

CFeatures *

data = NULL

)

[virtual]

learn distribution

Parameters:

data

training data

Returns:

whether training was successful

Implements CDistribution.

Definition at line 33 of file PositionalPWM.cpp.

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Member Data Documentation

float64_t m_mean [protected]

mean

Definition at line 177 of file PositionalPWM.h.

float64_t* m_poim [protected]

poim

Definition at line 192 of file PositionalPWM.h.

int32_t m_poim_len [protected]

POIM len

Definition at line 189 of file PositionalPWM.h.

float64_t* m_pwm [protected]

pwm

Definition at line 171 of file PositionalPWM.h.

int32_t m_pwm_cols [protected]

pwm cols

Definition at line 168 of file PositionalPWM.h.

int32_t m_pwm_rows [protected]

pwm rows

Definition at line 165 of file PositionalPWM.h.

float64_t m_sigma [protected]

sigma

Definition at line 174 of file PositionalPWM.h.

float64_t* m_w [protected]

w

Definition at line 186 of file PositionalPWM.h.

int32_t m_w_cols [protected]

w cols

Definition at line 183 of file PositionalPWM.h.

int32_t m_w_rows [protected]

w rows

Definition at line 180 of file PositionalPWM.h.

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

• PositionalPWM.h
• PositionalPWM.cpp