[mira_talk] Re: a question about Nextera Kit vs TruSeq Kit
- From: Adrian Pelin <apelin20@xxxxxxxxx>
- To: "mira_talk@xxxxxxxxxxxxx" <mira_talk@xxxxxxxxxxxxx>
- Date: Tue, 28 Oct 2014 23:16:51 -0400
I have 2 samples from different organisms that originate from nextera cutting.
Very poor coverage consistancy...
Sincerely,
Adrian
On Oct 28, 2014, at 8:03 PM, Kevin Chen <wchen20@xxxxxxxxx> wrote:
>> Hi, Bastian & Mira community
>>
>> I am Bing from U of Maryland. When I read your Mira manual, I notice this
>> statement below. I am interested in getting more information on that.
>> Because Nextera kit has its own advantages that TruSeq does not have, for
>> example, working with minute amount of material, I have high hope for
>> Nextera. Do you have any prelim data to support this statement? If this is
>> true, I have to re-think a lot of my experiment design using Nextera,
>> that’ll change a lot of things.
>>
>> "For de-novo assemblies, do NOT (never ever at all and under no
>> circumstances) use the Nextera kit, take TruSeq. The non-random
>> fragmentation behaviour of Nextera leads to all sorts of problems for
>> assemblers (not only MIRA) which try to use kmer frequencies as a criterion
>> for repetitiveness of a given sequence."
>>
>> Thank you in advance,
>> Bing
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