[mira_talk] Re: cluster reads before assembly
- From: Bastien Chevreux <bach@xxxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Thu, 22 Jul 2010 20:47:20 +0200
On Donnerstag 22 Juli 2010 Isabel Queirós Neves wrote:
> I would like to know if the removal of reads that are exactly the same
> before the assembly will negatively influence MIRA's 'behaviour'?
Yes. Two (or more) identical reads would form a contig. Leaving only one read
would make a singlet out of it.
> reading the manual I somehow got the impression that MIRA uses the
> repeats to tag the singlets, for example.
No, this does not happen.
> But I read on MIRA talk that reads could be clustered using wcdest, i
> am not sure if this is a go approach to reduce the amount of reads I
> have.
Clustering reads before assembly might not be the best approach. Never tried
it, but I have my doubts.
What's the "amount" of reads you're talking of?
B.
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