[mira_talk] Re: megahubs
- From: Jose Huguet Tapia <jch63@xxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Wed, 25 Jun 2014 18:30:31 -0400
Actually my reads have been corrected with illumina reads. I used the LSC
tool.
http://www.healthcare.uiowa.edu/labs/au/LSC/
Can I consider those as corrected reads for MIRA?
On Wed, Jun 25, 2014 at 6:24 PM, Bastien Chevreux <bach@xxxxxxxxxxxx> wrote:
> On 25 Jun 2014, at 23:51 , Jose Huguet Tapia <jch63@xxxxxxxxxxx> wrote:
> > Running now.
> > I got a warning though
> > :WARNING!!!!!!
> > You are not performing a 'mapping only' assembly and the parameters
> > -SK:bph=6 and -SK:hss=1
> > are quite low. If SKIM takes ages, stop this assembly and restart while
> > increasing these parameters.
> >
> > Should I continue or change the bph and hss parameters
>
> Owww, frak! I completely missed that you are running low quality PB. Stop
> that, it won’t work. MIRA currently can run only with high quality PB
> reads, i.e., corrected reads. Sorry.
>
> B.
>
>
>
>
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