https://github.com/mcclowes/smith-waterman-alignment
Smith-Waterman alignment implementation
https://github.com/mcclowes/smith-waterman-alignment
algorithm bioinformatics local-alignments smith-waterman-alignment
Last synced: about 1 year ago
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Smith-Waterman alignment implementation
- Host: GitHub
- URL: https://github.com/mcclowes/smith-waterman-alignment
- Owner: mcclowes
- Created: 2015-11-11T16:51:43.000Z (over 10 years ago)
- Default Branch: master
- Last Pushed: 2015-11-12T23:56:01.000Z (over 10 years ago)
- Last Synced: 2025-02-15T11:31:51.949Z (about 1 year ago)
- Topics: algorithm, bioinformatics, local-alignments, smith-waterman-alignment
- Language: Python
- Size: 0 Bytes
- Stars: 0
- Watchers: 2
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
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README
# Bioinformatics - Smith-Waterman Alignment
Task 1 - Implement Smith-Waterman
Task 2 - Utilise Task 1 implementation to create a merged sequence from a set of local alignments
# Task 1
Task 1 implements Smith-Waterman local alignment, reading in 2 lines at a time from a given file and locally aligning those sequences in turn.
To run the code in terminal, navigate to the directory of the submission and enter:
```
python Task1.py
```
# Task 2
Task 2 implements reads in a template sequence and n many subsequent sequences, locally aligns those n sequences against the template sequence, and the constructs a new sequence from those n sequences based on their local alignment order.
```
python Task2.py
```