Re: [galaxy-user] de novo assembly

On Thu, Sep 29, 2011 at 7:49 PM, Cecilia Tamborindeguy ctamborindeguy@ag.tamu.edu wrote:

Hello,

I would like to know if Galaxy can do de novo assembly without a reference genome.

Thanks.

Cecilia

Are you trying to use the Public Galaxy or a local install? There are several assemblers with Galaxy Wrappers on the Galaxy ToolShed (e.g. Roche "Newbler", and MIRA 3) which you could add to your own local Galaxy if you have one.

However, do novo genome assembly can be very computationally demanding, so not many Galaxy Instances will want to offer it.

Peter