GitHub - madisonlondon/Nucleotide-Alignment: This program determines the optimal alignment of two nucleotide sequences using the Smith–Waterman algorithm. Optimality, of course, is determined by the values of the gap penalty g and the weight matrix (that lists all of the s(ai , bj )). Finally the program outputs the optimal similarity score along with the optimal alignment.

Branches Tags

Name		Name	Last commit message	Last commit date
Latest commit History 2 Commits
AlignmentMatrixScores.java		AlignmentMatrixScores.java
README		README
SmithWatermanSequenceComparison.java		SmithWatermanSequenceComparison.java

Repository files navigation

This code was created by Madison London and Sophie Borchart

About

This program determines the optimal alignment of two nucleotide sequences using the Smith–Waterman algorithm. Optimality, of course, is determined by the values of the gap penalty g and the weight matrix (that lists all of the s(ai , bj )). Finally the program outputs the optimal similarity score along with the optimal alignment.

smith-waterman nucleotide-sequence smith-waterman-alignment nucleotide-alignment

Readme