https://github.com/dustinmichels/pl-phylogeny

Evolutionary trees of programming languages, derived from analagous code snippets.
https://github.com/dustinmichels/pl-phylogeny

bioinformatics evolution phylogenetic-trees programming-languages python

Last synced: 13 days ago
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Evolutionary trees of programming languages, derived from analagous code snippets.

• Host: GitHub
• URL: https://github.com/dustinmichels/pl-phylogeny
• Owner: dustinmichels
• Created: 2019-04-29T17:08:01.000Z (over 5 years ago)
• Default Branch: master
• Last Pushed: 2019-05-01T21:32:37.000Z (over 5 years ago)
• Last Synced: 2024-10-27T16:45:59.085Z (2 months ago)
• Topics: bioinformatics, evolution, phylogenetic-trees, programming-languages, python
• Language: Jupyter Notebook
• Homepage:
• Size: 623 KB
• Stars: 3
• Watchers: 3
• Forks: 0
• Open Issues: 2
• Metadata Files:
  • Readme: README.md

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README

        
# Programming Language Phylogeny

Phylogenetic tree of programming languages constructed from code snippets

> STATUS: Early! In progress.

## Samples

![Early Tree](images/tree.png)

_Fig 1._ Tree based on MULT "gene", ie `multiply(a, b) { return a * b}`

![Jupyter code](images/c_cpp.png)

![Jupyter code](images/c_py.png)

_Fig 2._ Jupyter Notebooks examples of aligning "sequences" with needleman-wunsch algorithm and computing similarity score.

## Setup

```bash

# create conda env

conda env create -f environment.yml

# activate

conda activate phylo

# install dev dependencies

pip install -r dev-requirements.txt

# run Jupyter Lab

jupyter lab

```

Alternatively...

```bash

conda env create -f full_env.yml

```

Also helpful:

```bash

# remove environemt

conda remove --name phylo --all

# export env to file

conda env export > full_env.yml

```