Detailed Description

Score pair of atoms based on SOAP.

Optimized atomic statistical potentials: Assessment of protein interfaces and loops. Dong GQ, Fan H, Schneidman-Duhovny D, Webb B, Sali A. Bioinformatics. 2013

soap_score.lib is the table that was developed for scoring docking models. Should be applied on pairs of atoms from the two docked proteins.

You need to use IMP::atom::add_dope_score_data() to add the requisite atom type data to the particles being scored.

Definition at line 31 of file Soap.h.

Public Member Functions
	Soap (double threshold=std::numeric_limits< double >::max())

	Soap (double threshold, base::TextInput data_file)

Public Member Functions inherited from IMP::score_functor::Statistical< DopeType, false, false >
	Statistical (IntKey k, double threshold, base::TextInput data_file)

	Statistical (IntKey k, double threshold, base::TextInput data_file, unsigned int shift)

bool	get_is_trivially_zero (kernel::Model *m, const ParticleIndexPair &p, double squared_distance) const

double	get_maximum_range (kernel::Model *, const ParticleIndexPair &) const

double	get_score (kernel::Model *m, const ParticleIndexPair &pp, double distance) const

DerivativePair	get_score_and_derivative (kernel::Model *m, const base::Array< 2, kernel::ParticleIndex > &pp, double distance) const

Public Member Functions inherited from IMP::score_functor::Score
kernel::ModelObjectsTemp	get_inputs (kernel::Model *m, const kernel::ParticleIndexes &pis) const

template<unsigned int D>
bool	get_is_trivially_zero (kernel::Model *m, const base::Array< D, kernel::ParticleIndex > &p, double squared_distance) const

template<unsigned int D>
double	get_maximum_range (kernel::Model *m, const base::Array< D, kernel::ParticleIndex > &p) const

template<unsigned int D>
double	get_score (kernel::Model *m, const base::Array< D, kernel::ParticleIndex > &p, double distance) const
	Return the score at the passed feature size (eg distance). More...

template<unsigned int D>
DerivativePair	get_score_and_derivative (kernel::Model *m, const base::Array< D, kernel::ParticleIndex > &p, double distance) const
	Return the score and derivative at the passed feature size (eg distance). More...

void	show (std::ostream &) const

Static Public Member Functions
static IntKey	get_soap_type_key ()

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

Soap.h

Detailed Description

Public Member Functions

Static Public Member Functions