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IMP Reference Guide  2.13.0
The Integrative Modeling Platform
IMP::score_functor::Dope Class Reference

#include <IMP/score_functor/Dope.h>

+ Inheritance diagram for IMP::score_functor::Dope:

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: