Re: [Biopython] New Feature Idea

Peter Cock <[email protected]> Thu, 6 Apr 2023 09:12:42 +0100

Newsgroups	gmane.comp.python.bio.general
Message-ID	<CAKVJ-_5fEWZKOcQA-tuQYL9iKpHf7Rf+OUAA6ZA6x64gQt_8EA@mail.gmail.com>

Hello Olin,

I can recommend the RapidFuzz library which has various high
performance implementations of string comparisons, including the
Hamming distance. I use this for the Levenshtein distance.

https://maxbachmann.github.io/RapidFuzz/index.html
https://github.com/maxbachmann/RapidFuzz
https://doi.org/10.5281/zenodo.5228985

I don't see that adding our own implementation to Biopython adds much?

Peter

On Thu, Apr 6, 2023 at 3:34 AM Olin Johnson <[email protected]> wrote:
>
> Howdy!
>
> I’m Olin, and I’m interested in contributing to Biopython. While using Biopython, I had the thought that it might be useful to implement a method that calculates the hamming distance between two DNA sequences. This could be useful for quickly finding mutations. Wondering if this would be a good feature to implement.
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