[mira_talk] Re: hybrid assembly question
- From: Bastien Chevreux <bach@xxxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Wed, 8 Jul 2009 01:08:09 +0200
On Dienstag 07 Juli 2009 周琦 wrote:
> Hi, glad to have mira and the discussion forum here. I'm a new guy to
> mira, so not sure I did it right:
> [...]
> mira -GE:not=8 -fasta -project=hybrid -job=denovo,genome,normal,sanger,454
> -notraceinfo
Hello Qi,
one first thing: I think you should tell MIRA not to clip the "sanger" reads:
"--noclipping=sanger"
But could you give some more info on what you did? I'm not sure I understand
what you mean with "130Mb assembled scaffolds produced by Solexa". Did you take
unaltered contigs? If yes, did you shred the longer ones (>20kb)? How big is
the organism you try to assemble?
Regards,
Bastien
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