[mira_talk] Re: BAC vector sequece masking for de novo assembly using PacBio C2
- From: Bastien Chevreux <bach@xxxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Sun, 8 Dec 2013 15:11:46 +0100
On 08 Dec 2013, at 13:16 , Juan Pascual Anaya <jpascualanaya@xxxxxxxxx> wrote:
> […]
> Now it's been running for a few hours without any complain, but I wonder how
> good is what I'm doing... My goal is to get those repeats also assembled,
> since they seem important for what I want to study (the Hox clusters of the
> hagfish; Hox clusters are usually repetitive sequence-free...).
>
> Any advices?
You might be interested in a posting from a couple of days ago:
//www.freelists.org/post/mira_talk/PacBio-data,4
In your case, I’d go with -CO:mrpg=5 (or 6) as a first approximation.
B.
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