[mira_talk] Re: hybrid assembly question
- From: Bastien Chevreux <bach@xxxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Mon, 13 Jul 2009 22:21:15 +0200
On Mittwoch 08 Juli 2009 周琦 wrote:
> I produced 130Mb scaffolds from Solexa reads with SOAPdenovo, the longest
> scaffold is about 1Mb. I used unaltered contigs/scaffolds without shreding
> them. The organism genome size is about 200Mb. Thank you.
Hi Qi,
hmmm, I wonder how you were able to load the large contigs with MIRA
complaining about sequences being too long. The current limit for sequence
length is 20k bases. I think I can quite easily bump it up to 32k, but this
would be the absolute upper limit at the moment. For MIRA being able to do a
Smith-Waterman on larger sequences I'd need to rewrite larger portions of the
code.
Regards,
Bastien
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