[mira_talk] Re: R: Re: all my 16S in one contig
- From: Juan Daniel Montenegro Cabrera <jdmontenegroc@xxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Thu, 8 Mar 2012 10:48:09 -0500
Personally, I do not think it is a good idea to analyze draft genomes. At
least they should have a certain degree of finishing or check for
missassemblies before analyzing it any further, or else you will have
missguided results.
You should start this discussion in some other more specialized forum, like
seqAnswers, or a discussion group on linked-in.
Regards,
Juan Montenegro
2012/3/8 Davide Sassera (davide.sassera) <davide.sassera@xxxxxxxx>
> Dear all, thanks for all the responses!
>
>
> So, basically it seems that except from tweaking my assembly by lowering
> the coverage and fixing -CO:mrpg (which I'm working on right now) there is
> only one way: get dirty with finishing.
>
>
> However, this leads to a more general question: what do you guys think
> of draft genomes? I see more and more papers that ditch finishing
> completely and simply analyze the contigs they obtain with basic assemblies
> (newbler, velvet...).
>
>
> Do you guys believe those data to be sound enough? Of course it depends
> on the analyses that are to be done, but some thoughts from the experts
> (that would be you) could be very insightful.
>
>
> D.
>
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