[mira_talk] Re: After Scaffolding
- From: "Giuseppe D'Auria"<Giuseppe.Dauria@xxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Tue, 8 Sep 2009 07:58:36 +0200 (CEST)
Thank you I'm going to try it
Giuseppe
> On Montag 07 September 2009 Davide Sassera wrote:
> > What do you guys do? you take the Bambus output as "right" as it is or
> > you have a method to check the quality and possibly modify the scaffold?
>
> I never worked with Bambus but had some scripts cobbled together which
failed
> doing things automatically more often than not ... but with some
manual help I
> always got my scaffolds.
>
> What I did then was this: take the scaffold as backbone and perform a
mapping
> assembly on it. With that, go into gap4 and looked for the last remaining
> uncertainties.
>
> I think you shoud be able to do this also with the Bambus scaffold.
>
> Hope this helps,
> Bastien
>
>
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******************************************
Dr. Giuseppe D'Auria
Cavanilles Institute for
Biodiversity and Evolutionary Biology
University of Valencia
"Poligono de la Coma" s/n
46980 Paterna (Valencia),Spain
web: http://www.uv.es/cavanilles/genevol/
tel: +34 9635 43270
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