edu.uconn.mcb.lineageevolver
Interface SubstitutionMatrix

All Known Implementing Classes:

JTT

public interface SubstitutionMatrix

Common interface for all substitution matrices.

Author:

Hasan Khalil, Lina Pezzella

Method Summary

Substitutable

getSubstitution(Substitutable s) Returns a suitable substitution for the provided substitutable according to this substitution matrix.

Method Detail

getSubstitution

public Substitutable getSubstitution(Substitutable s)

Returns a suitable substitution for the provided substitutable according to this substitution matrix. Choices should be made in a randomized fashion, weighted according to the values in the substitution matrix. The return and parameter types must match.

Parameters:

s - the substitutable for which a substitution must be generated.

Returns:

a substitution suitable for the provided substitutable.