[Bioperl-l] [BiO BB] Re: Tool to mutate DNA sequence

Maximilian Haeussler maximilianh at gmail.com
Tue Feb 14 05:11:42 EST 2006


The tool ROSE also evolves sequences on a tree. There is a web
interface and downloadable source at
http://bibiserv.techfak.uni-bielefeld.de/rose/

Max

On 09/02/06, Jason Stajich <jason.stajich at duke.edu> wrote:
> Depending on whether or not you want to use evolutionary realistic
> models...
> * evolver which comes with PAML lets you evolve sequences on a tree
> * SeqGen from Andrew Rambaut http://evolve.zoo.ox.ac.uk/software.html?
> id=seqgen
> also lets you do this
> I believe there are PISE interfaces to both of these at the pasteur
> bioweb site - http://bioweb.pasteur.fr/
>
> -jason
> On Feb 8, 2006, at 11:46 PM, Ryan Golhar wrote:
>
> > Does anyone know of tool to mutate a DNA sequence by a specified
> > amount?
> > For instance, say I have a DNA sequence 1000 bases long, and I want to
> > simulate mutations to make it 75% (or 80%, etc) similar to the
> > original.
> >
> >
> > Ryan
> >
> > _______________________________________________
> > Bioperl-l mailing list
> > Bioperl-l at lists.open-bio.org
> > http://lists.open-bio.org/mailman/listinfo/bioperl-l
>
> --
> Jason Stajich
> Duke University
> http://www.duke.edu/~jes12
>
>
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>


--
Maximilian Haeussler,
CNRS Gif-sur-Yvette, Paris
tel: +33 6 12 82 76 16
icq: 3825815  -- msn: maximilian.haeussler at hpi.uni-potsdam.de
skype: maximilianhaeussler



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