https://github.com/cgoliver/rna-popgen-notebook

Jupyter notebook for RNA evolutionary algorithm and subsequent population genetics and BioPython tools.
https://github.com/cgoliver/rna-popgen-notebook

biopython jupyter-notebook population-genetics rna rna-evolutionary-algorithm

Last synced: about 2 months ago
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Jupyter notebook for RNA evolutionary algorithm and subsequent population genetics and BioPython tools.

• Host: GitHub
• URL: https://github.com/cgoliver/rna-popgen-notebook
• Owner: cgoliver
• Created: 2016-06-14T15:29:42.000Z (over 8 years ago)
• Default Branch: master
• Last Pushed: 2016-06-14T15:47:07.000Z (over 8 years ago)
• Last Synced: 2023-08-06T08:03:20.030Z (over 1 year ago)
• Topics: biopython, jupyter-notebook, population-genetics, rna, rna-evolutionary-algorithm
• Language: Jupyter Notebook
• Size: 206 KB
• Stars: 5
• Watchers: 2
• Forks: 1
• Open Issues: 0
• Metadata Files:
  • Readme: README.md

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README

        
# RNA-Popgen-Notebook

Jupyter notebook for RNA evolutionary algorithm and subsequent population genetics and BioPython tools.

This notebook takes you from building populations using RNA structure-function as a model for evolving populations to studying these evolved populations using some basic population genetics tools.

The file `Population_Genetics_work.ipynb` has '...' placeholders where you can fill in the code yourself if you want to get some programming practice. The file `Population_Genetics.ipynb` is the fully coded version. You will find an implementation of the Nussinov RNA folding algorithm in the file `fold.py`.