net.sourceforge.cilib.bioinf.sequencealignment
Interface ScoringMethod

All Known Implementing Classes:

BestMatch, BLOSUM62SoP, MatchFogel, PAM250SoP, Similarity

public interface ScoringMethod

Public common interface to allow multiple scoring schemes, namely Similarity, MatchFogel, and BestMatch (DNA or any characters), BLOSUM and PAM (Proteins).

Author:

Fabien Zablocki

Method Summary

double

getScore(ArrayList<String> alignment)

Method Detail

getScore

double getScore(ArrayList<String> alignment)