[Biopython] Biopython project

[Peter Cock]

Hello Spasso,

I don't think Biopython has anything like this already, but the closest
example I can think needing to use in my own code is randomly
shuffling sequences to make a random sequence with the same
overall composition - and that is easy to do with standard Python code.

Python has lots of useful functions in the standard library itertools
which I have used for some related tasks (not to do with biological
sequences or genetics):

https://docs.python.org/3/library/itertools.html

Given your code has uses outside of Biology, it would probably
make sense to make it a standalone library on PyPI:

https://pypi.org/

Thank you,

Peter

On Wed, Mar 20, 2019 at 11:10 AM Spasso Tech <matheushfbrandao at gmail.com> wrote:
>
> Good morning,
>
> My name is Matheus,
>
> I wrote an algorithm of permutation, this algorithm make any permutation with any string length.
>
> I every seen problems with the length of strings for a permutation because the algorithms that i see on the internet don't support permutation above 10 elements because of level of the processing.
>
> The permutators that i see enumerate the permutation but don,t access efficiently the permutations enumerate because firtst generate all permutations for after access te possition in one array.
>
> On my algorithm for example i can permute 50 elements that give 30414093201713378043612608166064768844377641568960512000000000000
> possibilities, if i need access the permutation order 15414232157133780436126081660647688443776415689605121234333 i just need to pass that number and i can access the permutation in order 42321571337804361260816606476884437764156896051212345511  in
>  fractions of seconds.
>
> This algorithm is written in Python and in C. They told me that genetics area is very usual for the application of this code.
>
> For example to permute the triplet code and generate all probability of encodes.
>
> In your project have this resource? My code have other mathematical characteristics that can be explorate is very interesting .
>
> Thank you for your patience and consideration.
> Sorry my English
>
> Regards,
>
> Matheus Henrique Ferreira Brandão
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