Code to calculate codon usage tables

[ewallace]

Hi Peter,
I finally learned how to use DNAchisel and found it very useful, all here:
https://github.com/ewallace/Emergomyces_constructs_2025

For my applications needing codon usage tables for specific subsets of genes in non-model organisms, it was useful to write code to calculate codon usage tables to use as input for DnaOptimizationProblem, etc. That code is in Emergomyces_constructs_2025/src/codon_count_functions.py. If that code is useful at all, or interesting to incorporate to DNAchisel, let me know!

Code was inspired by https://github.com/Benjamin-Lee/CodonAdaptationIndex, which has an MIT License. I didn't put a license on my repo above yet.

I did not write tests.

Best
Edward