Rosetta Core  2014.35
Namespaces
SimpleScoringScheme.cc File Reference

class definition for a given scoring scheme for an alignment. More...

#include <core/types.hh>
#include <core/sequence/Sequence.hh>
#include <core/sequence/SimpleScoringScheme.hh>
#include <utility/exit.hh>
#include <string>
#include <utility/vector1.hh>

Namespaces

 core
 A class for reading in the atom type properties.
 
 core::sequence
 

Detailed Description

class definition for a given scoring scheme for an alignment.

Detailed: Scoring scheme based on comparing single characters from two sequences
with three types of score:
  • score for a match (characters are equal)
  • score for a mismatch (characters are not equal)
  • affine gap penalties of the form penalty = A + Bk
Author
James Thompson