https://github.com/mohamedsaidsallam/bioinformatics-dna-alignment
A simple python script to get the global alignment using either Dot Matrix (Window) or Needman-Wunch, or local alignment using Smith-Waterman.
https://github.com/mohamedsaidsallam/bioinformatics-dna-alignment
needleman-wunsch notebook-jupyter python smith-waterman venv
Last synced: 4 days ago
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A simple python script to get the global alignment using either Dot Matrix (Window) or Needman-Wunch, or local alignment using Smith-Waterman.
- Host: GitHub
- URL: https://github.com/mohamedsaidsallam/bioinformatics-dna-alignment
- Owner: MohamedSaidSallam
- License: mit
- Created: 2021-05-28T18:43:43.000Z (over 4 years ago)
- Default Branch: master
- Last Pushed: 2021-05-30T13:31:42.000Z (over 4 years ago)
- Last Synced: 2025-03-24T12:19:16.657Z (7 months ago)
- Topics: needleman-wunsch, notebook-jupyter, python, smith-waterman, venv
- Language: HTML
- Homepage:
- Size: 171 KB
- Stars: 0
- Watchers: 1
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- License: LICENSE
Awesome Lists containing this project
README
# Bioinformatics DNA Alignment
[![GitHub Release][github_release_badge]][github_release_link]
[![License][license-image]][license-url]
A simple python script to get the global alignment using either Dot Matrix (Window) or Needman-Wunch, or local alignment using Smith-Waterman.
Done as an assignment to CSE449: Bioinformatics @ Ain Shams University.
## Example Output
## Getting A local copy running
```sh
py -m venv venv
venv/Scripts/activate.bat
pip install -r requirements.txt
```
For bash, Replace the activate line with
```sh
source venv/Scripts/activate
```
Finally, Open the Examples Notebook (``Examples.ipynb``).
## Built With
* [VS Code](https://code.visualstudio.com/) - Code Editor
## Contributing
Please read [CONTRIBUTING.md](CONTRIBUTING.md) for details on our code of conduct, and the process for submitting pull requests to us.
## Versioning
We use [SemVer](http://semver.org/) for versioning. For the versions available, see the [tags on this repository][github-tags].
## Authors
* **Mohamed Said Sallam** - Main Dev - [TheDigitalPhoenixX](https://github.com/TheDigitalPhoenixX)
See also the list of [contributors][github-contributors] who participated in this project and their work in [CONTRIBUTORS.md](CONTRIBUTORS.md).
## License
This project is licensed under the MIT License - see the [LICENSE](LICENSE) file for details
## Acknowledgments
* [README.md Template](https://gist.github.com/PurpleBooth/109311bb0361f32d87a2)
[license-image]: https://img.shields.io/badge/License-MIT-brightgreen.svg
[license-url]: https://opensource.org/licenses/MIT
[github_release_badge]: https://img.shields.io/github/v/release/TheDigitalPhoenixX/Bioinformatics-DNA-Alignment.svg?style=flat&include_prereleases
[github_release_link]: https://github.com/TheDigitalPhoenixX/Bioinformatics-DNA-Alignment/releases
[github-contributors]: https://github.com/TheDigitalPhoenixX/Bioinformatics-DNA-Alignment/contributors
[github-tags]: https://github.com/TheDigitalPhoenixX/Bioinformatics-DNA-Alignment/tags