[mira_talk] Re: Assembling 454 and Solexa mate-pair data - rethinking ...
- From: "Martin A. Hansen" <mail@xxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Thu, 10 Sep 2009 08:09:51 +0200
Aha! Me bad ...
So, why are qualities so important? If you have enough sequence it should
level out?
Martin
On Wed, Sep 9, 2009 at 11:18 PM, Bastien Chevreux <bach@xxxxxxxxxxxx> wrote:
> On Mittwoch 09 September 2009 Sven Klages wrote:
> > No idea if this is relevant, but MIRA docs say default file naming should
> > be something like
> > [...]
> > M1_in.454.fasta
> > M1_in.454.fasta.qual
> >
> > M1_in.solexa.fasta
> > M1_in.solexa.fasta.qual
> >
> > Maybe your quals have not been read?
>
> This is, of course the correct answer to the mystery.
>
> *sigh* Somewhen in the 2.x series, users convinced me it would be so much
> more
> user friendly if one could assemble sequence without qualities without
> every
> time setting a special flag telling MIRA not to complain. Well, cases like
> the
> one Martin encountered were the ones I feared but I still implemented that
> as
> standard behaviour. Serves me right.
>
> Mea culpa.
>
> I'll change the standard behaviour of MIRA back to it's roots: complain the
> hell out of everything if something is fishy.
>
> Best,
> Bastien
>
>
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