Algorithms covered in the Bioinformatics Course part of the Cambridge Computer Science Tripos

Overview

Bioinformatics

This is a repository of all the algorithms covered in the Bioinformatics Course part of the Cambridge Computer Science Tripos

Algorithms Implemented:

Alignment Problems:

Phylogeny (Evolutionary Tree) Algorithms:

  • Limb Length - O(n^2) and O(n) solutions
  • Additive Phylogeny
  • UPGMA
  • Neighbour Joining

Additional Files Explained:

  • Demos - A list of functions that can be used to demo the algorithms
  • Scoring Functions - Stores different scoring matrices encapsulated into a function to use in alignment problems
  • Alignment-Graph- A class for representing alignment/edit graphs
  • Rosalind - Answers Rosalind Questions
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