Assignments

• Assignment #1
  Programming Assignment #1: Assignment about pairwise sequence alignment by dynamic programming.
        Download test data for Assignment #1
  
        SOLUTIONS
        A solution in Java
        Alignment output files
• Assignment #2
  Programming Assignment #2: Assignment about construction of profile HMMs from multiple sequence alignments.
        Download test data for Assignment #2
  
        An example MSA input.
        The HMM output for the example.
  
        A solution for Assignment #2 in Java
  
  
• Assignment #3
  Programming Assignment #3: Assignment about implementing the forward algorithm.
        Download test sequences for Assignment #3
  
        Download profile HMMs of the four families of sequences (Link will be active after May 3).
  
        A solution for Assignment #3 in Java
  
  
• Assignment #4 (DUE DATE: MAY 30, 23:55)
  Programming Assignment #4: Assignment about protein structures.
        Download test structures for Assignment #4