Detailed Description

Cross correlation coefficient calculator.

Store CCC and derivative values and recompute then every X steps.

Definition at line 22 of file CoarseCCatIntervals.h.

Public Member Functions
	CoarseCCatIntervals (const int &ncd)

std::pair< double, algebra::Vector3Ds >	evaluate (DensityMap em_map, SampledDensityMap model_map, const algebra::Vector3Ds &deriv, float scalefac, bool lderiv, unsigned long eval_interval)
	Evaluate the cross-correlation value only every X calls to the function. More...

virtual std::string	get_type_name () const

virtual ::IMP::VersionInfo	get_version_info () const
	Get information about the module and version of the object. More...

Public Member Functions inherited from IMP::Object
virtual void	clear_caches ()

CheckLevel	get_check_level () const

LogLevel	get_log_level () const

void	set_check_level (CheckLevel l)

void	set_log_level (LogLevel l)
	Set the logging level used in this object. More...

void	set_was_used (bool tf) const

void	show (std::ostream &out=std::cout) const

const std::string &	get_name () const

void	set_name (std::string name)

Protected Member Functions
void	allocate_derivatives_array (int ncd)

Protected Member Functions inherited from IMP::Object
	Object (std::string name)
	Construct an object with the given name. More...

virtual void	do_destroy ()

Protected Attributes
int	calls_counter_
	Number of times the evaluation has been called. More...

bool	dv_memory_allocated_

float	stored_cc_
	Stored correlation value. More...

boost::scoped_array< double >	stored_dvx_
	Stored derivative terms. More...

boost::scoped_array< double >	stored_dvy_

boost::scoped_array< double >	stored_dvz_

Additional Inherited Members
Static Public Member Functions inherited from IMP::em::CoarseCC
static float	calc_score (DensityMap data, SampledDensityMap model_map, float scalefactor, bool recalc_rms=true, bool resample=true, FloatPair norm_factors=FloatPair(0., 0.))
	Calculates the value of the EM fitting term. More...

static double	cross_correlation_coefficient (const DensityMap grid1, const DensityMap grid2, float grid2_voxel_data_threshold, bool allow_padding=false, FloatPair norm_factors=FloatPair(0., 0.))
	Calculates the cross correlation coefficient between two maps. More...

static float	local_cross_correlation_coefficient (const DensityMap em_map, DensityMap model_map, float voxel_data_threshold)
	Local cross correlation function. More...

Member Function Documentation

std::pair<double, algebra::Vector3Ds> IMP::em::CoarseCCatIntervals::evaluate	(	DensityMap *	em_map,
		SampledDensityMap *	model_map,
		const algebra::Vector3Ds &	deriv,
		float	scalefac,
		bool	lderiv,
		unsigned long	eval_interval
	)

Evaluate the cross-correlation value only every X calls to the function.

Evaluates the value of the cross correlation term but only at given intervals to save computation time. Otherwise, the same value is returned. This function has an special behavior, as it does not return the true cross correlation coefficient ccc, but the value: scalefac*(1-ccc)

The reason why is to use this term as part of an scoring function that is better the lower the term. If you want the cross correlation coefficient, use cross_correlation_coefficient() instead.

Parameters

[in] em_map exp EM map

Note: correct RMSD and mean MUST be in the header!

Parameters

[in]	model_map	an empty map that will contain the sampled particles in the access_p
[in]	scalefac	scale factor to apply to the value of the cross correlation term
[in]	deriv	input derivatives (only the size is used)
[in]	lderiv	if true, the derivatives of the term are computed
[in]	eval_interval	the number of times the function is going to return the same value before computing the values again

Returns: the value of the cross correlation term: scalefac * (1-CCC) and a vector of derivatives

virtual ::IMP::VersionInfo IMP::em::CoarseCCatIntervals::get_version_info ( ) const

virtual

Get information about the module and version of the object.

Reimplemented from IMP::em::CoarseCC.

Definition at line 60 of file CoarseCCatIntervals.h.

Member Data Documentation

int IMP::em::CoarseCCatIntervals::calls_counter_

protected

Number of times the evaluation has been called.

The evaluation is only performed the first time and when calls_counter reaches eval_interval. Otherwise the stored_cc_ value is returned

Definition at line 67 of file CoarseCCatIntervals.h.

float IMP::em::CoarseCCatIntervals::stored_cc_

protected

Stored correlation value.

Definition at line 69 of file CoarseCCatIntervals.h.

boost::scoped_array<double> IMP::em::CoarseCCatIntervals::stored_dvx_

protected

Stored derivative terms.

Definition at line 71 of file CoarseCCatIntervals.h.

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

CoarseCCatIntervals.h

Detailed Description

Public Member Functions

Protected Member Functions

Protected Attributes

Additional Inherited Members

Member Function Documentation

Member Data Documentation