Detailed Description

Score pair of atoms based on DOPE.

See M.-y. Shen and A. Sali. Statistical potential for assessment and prediction of protein structures. Protein Science 15, 2507-2524, 2006.

DOPE should not be applied to two atoms from the same residue. You may need to use the SameResiduePairFilter to filter these out.

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

Examples:: atom/dope_and_excluded_volume.cpp.

Definition at line 36 of file Dope.h.

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

	Dope (double threshold, TextInput data_file)

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

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

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

double	get_maximum_range (Model *, const ParticleIndexPair &) const

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

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

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

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

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

template<unsigned int D>
double	get_score (Model *m, const Array< D, 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 (Model *m, const Array< D, 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_dope_type_key ()

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

Dope.h

Detailed Description

Public Member Functions

Static Public Member Functions