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Classes | Namespaces | Constant Groups
TalosSSSimilarity.hh File Reference

scores a fragment by secondary structure similarity More...

#include <core/types.hh>
#include <protocols/frag_picker/FragmentPicker.hh>
#include <protocols/frag_picker/scores/FragmentScoreMap.hh>
#include <protocols/frag_picker/scores/CachingScoringMethod.hh>
#include <core/fragment/SecondaryStructure.hh>
#include <utility/vector1.hh>

Classes

class  protocols::frag_picker::scores::TalosSSSimilarity
 scores a fragment by secondary structure similarity The score for each position is P(H), P(L) or P(E) if a vall residue is within Helix, Loop or Extended secondary stucture element, respectively. P(H), P(L) and P(E) denotes the probability that a given residue in a query is within Helix, Loop or Extended secondary stucture element. The total score of a fragment is a simple sum of all positions; for N-mer fragment is a sum of N terms
If P(H), P(L) and P(E) probabilities takes only 1.0 and 0.0 values, result of this scoring function should be the same as SecondaryIdentity, although the later one is faster. More...
 
class  protocols::frag_picker::scores::MakeTalosSSSimilarity
 Maker class that produces a new TalosSSSimilarity object. More...
 

Namespaces

 protocols
 The instance of Loops contained by AbrelaxApplication should be replaced by a LoopsOP.
 
 protocols::frag_picker
 
 protocols::frag_picker::scores
 

Constant Groups

 protocols
 The instance of Loops contained by AbrelaxApplication should be replaced by a LoopsOP.
 
 protocols::frag_picker
 
 protocols::frag_picker::scores
 

Detailed Description

scores a fragment by secondary structure similarity

Author
rvern.nosp@m.on@u.nosp@m..wash.nosp@m.ingt.nosp@m.on.ed.nosp@m.u