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Gmane
From: Andreas Leimbach <andreas.leimbach <at> uni-wuerzburg.de>
Subject: Re: module for description of sequence variants (where to place code)
Newsgroups: gmane.comp.lang.perl.bio.general
Date: Monday 25th February 2013 10:32:43 UTC (over 3 years ago)
Hi Carnë,

for your last question:
You can convert aa strings from one to three letter code with 
'Bio::SeqUtils'.

Cheers,
Andreas

--
Andreas Leimbach
Universität Münster
Institut für Hygiene
Mendelstr. 7
D-48149 Münster
Germany

Tel.: +49 (0)551 39 3843
E-Mail: [email protected]

On 25.2.13 11:08, Carnë Draug wrote:
> Hi
>
> I'm writing a perl module to write a description of the variance
> between 2 sequences as described on
> http://www.hgvs.org/mutnomen/recs-prot.html
>
> Basically, given 2 sequences, would returns something like "p.Lys2del
> p.His25_Met26insGln" if those are the differences. It also accounts
> for the existence of - characters on the sequences that may come from
> their alignment.
>
> My question is, where on the project tree should I place the module?
>
> Also, is there something already written that would convert from 1 to
> 3 letter code?
>
> Carnë
>
> _______________________________________________
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>
 
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