https://github.com/bruvduroiu/protein-sequence-matching

https://github.com/bruvduroiu/protein-sequence-matching

computational-biology jupyter-notebook protein-sequences

Last synced: 7 months ago
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• Host: GitHub
• URL: https://github.com/bruvduroiu/protein-sequence-matching
• Owner: bruvduroiu
• Created: 2018-05-07T12:15:23.000Z (over 7 years ago)
• Default Branch: master
• Last Pushed: 2018-05-07T12:16:51.000Z (over 7 years ago)
• Last Synced: 2025-01-20T07:13:32.623Z (9 months ago)
• Topics: computational-biology, jupyter-notebook, protein-sequences
• Language: Jupyter Notebook
• Size: 56.6 KB
• Stars: 0
• Watchers: 1
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md

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README

          
# Protein Sequence Matching using Dynamic Programming and Hidden Markov Models

This Jupyter Notebook presents some implementations for Dynamic Programming algorithms for solving the task of protein sequence matching.

Algorithms explored:

- Needleman-Wunsch sequence matching

- Smith-Waterman partial sequence matching

- Viterbi Algorithm 

TODO:

- [ ] Better Data Visualisation

- [ ] Description of each algorithm

**This is part of the COMP3212: Computational Biology course taught at the [University of Southampton](https://www.ecs.soton.ac.uk)**