[mira_talk] Re: Hybrid EST assembling (Two species, A and B, Backbone from A, solexa sequences from B)

  • From: Arnaud Ungaro <arnaud.ungaro@xxxxxxxxxxxxxxxxx>
  • To: mira_talk@xxxxxxxxxxxxx
  • Date: Wed, 2 May 2012 21:57:58 +0200

Thank you about this precision. It is possible to change this rule ?
Or I have to 'filter' and remove this kind of sequences ? (Like
"3823-HWI...")
Arnaud

> Le 2 mai 2012 21:33, "Bastien Chevreux" <bach@xxxxxxxxxxxx> a écrit :
>
>> On May 2, 2012, at 16:08 , Arnaud Ungaro wrote:
>> > In exemple, at  the last locus ,the majority of reads are T, but
>> > consensus set to A (same as backbone).
>> > Maybe by setting backbone's quality lower ?
>>
>> I'm not sure that this will help: if I recall correctly, I think I
>> implemented a rule like "if you cannot decide between two or more bases for
>> the consensus, then take the backbone base if there are reads supporting
>> that decision".
>>
>> Which is the case in the screenshot you've shown ("3823-HWI...").
>>
>> B.
>>
>>
>>
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