[mira_talk] Re: Question about turn off end clip.
- From: "Yi Zheng" <yz357@xxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Thu, 17 Dec 2009 09:35:53 -0500 (EST)
Hi Bastien,
I write a simple script to handle this problem. It will delete ESTs that
were clipped too much ends from assembly result. But I have a old version
of 2.9.43 do not have this problem. It will not trim ends of reads when
turn off end cliping function. So I think 2.9.43 is more fit for my
assembly project. The problem is that I just have a x64 version of 2.9.43
because my desktop is 64 bit OS. Now I need a 32 bit version for my
server. Do you have it?
Thank you!
Yi
> On Montag 23 November 2009 Yi Zheng wrote:
>> The log info is too long so I post it on my blog :
>> http://kentnf.blogspot.com/2009/11/to-bastien-mira-log.html
>
> Ah, I suspect I know where the reads got cut: in the chimera trackdown
> part.
>
> When no clipping is applied, sequencing errors towards (but not quite at)
> the
> ends of reads may make it behave like a possible chimera, which is the
> reason
> why MIRA cuts them down.
>
> You can see this in the log in the lines starting with "Possible chimera".
>
> Regards,
> Bastien
>
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