[mira_talk] Re: Sanger and 454 assembly de novo

Hello,

Bastien Chevreux a écrit :

On Monday 12 January 2009 18:38, Emmanuelle Morin wrote:

I have tried the de novo assembly with the highlyrepetitive option, but
still the result is weird :
It is weird. Can you please say what you used as command line? And whether you had quality data in separate fasta quality files?
my command is : mira -fasta -project=hyb -job=denovo,est,normal,sanger,454 -highlyrepetitive -GE:not=4 
I have quality files for both methods

An other question, what does lrc mean ?
It's from the current development a marker I forgot to remove. It says that the contig was started with a highly repetitive repeat.
If I compare the lrc sequence and the c sequence, I see a big difference at the start. The lrc sequence starts with a lot of M,W,Ks .... but still I found some in c sequences. 

Thnaks,

Emmanuelle

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