[mira_talk] Re: Using MIRA to join contigs with 454 reads and/or map to Reference
- From: Bastien Chevreux <bach@xxxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Thu, 7 Apr 2011 20:20:53 +0200
On Thursday 07 April 2011 04:06:55 Rob Good wrote:
> I've just used SOAPdenovo to generate an initial denovo assembly of a
> Drosophila melanogaster paired end Illumina run.
> This has generated 60,000 contigs from 32 to 40000 bp.
Oh dear ... this is going to be such a mess.
> Can I :
> 1. Use MIRA to map these to a reference assembly
MIRA has a size cap of 15 to 20k per "read", so you will need to split longer
contigs.
> 2. Use MIRA to joins these contains together with some 454 reads
Same here: 15 to 20kb max as sequence size.
Apart from that: I think it should work.
B.
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